-- dump date 20111121_011825 -- class Genbank::misc_feature -- table misc_feature_note -- id note 207559000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 207559000002 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559000003 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 207559000004 DnaA box-binding interface [nucleotide binding]; other site 207559000005 DNA polymerase III subunit beta; Provisional; Region: PRK14947 207559000006 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the...; Region: beta_clamp; cd00140 207559000007 putative DNA binding surface [nucleotide binding]; other site 207559000008 dimer interface [polypeptide binding]; other site 207559000009 beta-clamp/clamp loader binding surface; other site 207559000010 beta-clamp/translesion DNA polymerase binding surface; other site 207559000011 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 207559000012 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000013 ATP binding site [chemical binding]; other site 207559000014 Mg2+ binding site [ion binding]; other site 207559000015 G-X-G motif; other site 207559000016 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are...; Region: TopoII_Trans_DNA_gyrase; cd00822 207559000017 anchoring element; other site 207559000018 dimer interface [polypeptide binding]; other site 207559000019 ATP binding site [chemical binding]; other site 207559000020 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 207559000021 active site 207559000022 putative metal-binding site [ion binding]; other site 207559000023 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 207559000024 DNA gyrase subunit A; Validated; Region: PRK05560 207559000025 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 207559000026 CAP-like domain; other site 207559000027 Active site [active] 207559000028 primary dimer interface [polypeptide binding]; other site 207559000029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000033 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000035 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559000036 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 207559000037 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 207559000038 dimer interface [polypeptide binding]; other site 207559000039 motif 1; other site 207559000040 active site 207559000041 motif 2; other site 207559000042 motif 3; other site 207559000043 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 207559000044 anticodon binding site; other site 207559000045 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 207559000046 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 207559000047 dimer interface [polypeptide binding]; other site 207559000048 anticodon binding site; other site 207559000049 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 207559000050 homodimer interface [polypeptide binding]; other site 207559000051 motif 1; other site 207559000052 active site 207559000053 motif 2; other site 207559000054 GAD domain; Region: GAD; pfam02938 207559000055 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 207559000056 motif 3; other site 207559000057 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 207559000058 active site 207559000059 catalytic residues [active] 207559000060 metal binding site [ion binding]; metal-binding site 207559000061 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 207559000062 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 207559000063 putative active site [active] 207559000064 substrate binding site [chemical binding]; other site 207559000065 putative cosubstrate binding site; other site 207559000066 catalytic site [active] 207559000067 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 207559000068 substrate binding site [chemical binding]; other site 207559000069 Protein of unknown function DUF116; Region: DUF116; cl00800 207559000070 Protein of unknown function DUF116; Region: DUF116; cl00800 207559000071 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 207559000072 putative RNA binding site [nucleotide binding]; other site 207559000073 16S rRNA methyltransferase B; Provisional; Region: PRK14901 207559000074 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559000075 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 207559000076 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 207559000077 mce related protein; Region: MCE; cl03606 207559000078 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 207559000079 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 207559000080 Walker A/P-loop; other site 207559000081 ATP binding site [chemical binding]; other site 207559000082 Q-loop/lid; other site 207559000083 ABC transporter signature motif; other site 207559000084 Walker B; other site 207559000085 D-loop; other site 207559000086 H-loop/switch region; other site 207559000087 Domain of unknown function DUF140; Region: DUF140; cl00510 207559000088 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 207559000089 anti sigma factor interaction site; other site 207559000090 regulatory phosphorylation site [posttranslational modification]; other site 207559000091 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 207559000092 putative ribose interaction site [chemical binding]; other site 207559000093 putative ADP binding site [chemical binding]; other site 207559000094 ParB-like partition proteins; Region: parB_part; TIGR00180 207559000095 ParB-like nuclease domain; Region: ParBc; cl02129 207559000096 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559000097 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 207559000098 P-loop; other site 207559000099 Magnesium ion binding site [ion binding]; other site 207559000100 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 207559000101 Magnesium ion binding site [ion binding]; other site 207559000102 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559000103 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 207559000104 putative NAD(P) binding site [chemical binding]; other site 207559000105 active site 207559000106 putative substrate binding site [chemical binding]; other site 207559000107 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 207559000108 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 207559000109 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 207559000110 dimer interface [polypeptide binding]; other site 207559000111 active site residues [active] 207559000112 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 207559000113 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 207559000114 Flavoprotein; Region: Flavoprotein; cl08021 207559000115 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 207559000116 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 207559000117 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 207559000118 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559000119 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559000120 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 207559000121 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 207559000122 dimer interface [polypeptide binding]; other site 207559000123 PYR/PP interface [polypeptide binding]; other site 207559000124 TPP binding site [chemical binding]; other site 207559000125 substrate binding site [chemical binding]; other site 207559000126 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559000127 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 207559000128 TPP-binding site [chemical binding]; other site 207559000129 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559000130 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559000131 FeS/SAM binding site; other site 207559000132 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559000133 Ligand Binding Site [chemical binding]; other site 207559000134 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559000135 Ligand Binding Site [chemical binding]; other site 207559000136 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 207559000137 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559000138 dimer interface [polypeptide binding]; other site 207559000139 active site 207559000140 metal binding site [ion binding]; metal-binding site 207559000141 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 207559000142 Proline dehydrogenase; Region: Pro_dh; cl03282 207559000143 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 207559000144 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 207559000145 Glutamate binding site [chemical binding]; other site 207559000146 homodimer interface [polypeptide binding]; other site 207559000147 NAD binding site [chemical binding]; other site 207559000148 catalytic residues [active] 207559000149 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 207559000150 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 207559000151 heterodimer interface [polypeptide binding]; other site 207559000152 active site 207559000153 FMN binding site [chemical binding]; other site 207559000154 homodimer interface [polypeptide binding]; other site 207559000155 substrate binding site [chemical binding]; other site 207559000156 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 207559000157 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 207559000158 FAD binding pocket [chemical binding]; other site 207559000159 FAD binding motif [chemical binding]; other site 207559000160 phosphate binding motif [ion binding]; other site 207559000161 beta-alpha-beta structure motif; other site 207559000162 NAD binding pocket [chemical binding]; other site 207559000163 Iron coordination center [ion binding]; other site 207559000164 Peptidase family U32; Region: Peptidase_U32; cl03113 207559000165 Peptidase family U32; Region: Peptidase_U32; cl03113 207559000166 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 207559000167 GTP-binding protein Der; Reviewed; Region: PRK00093 207559000168 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 207559000169 G1 box; other site 207559000170 GTP/Mg2+ binding site [chemical binding]; other site 207559000171 Switch I region; other site 207559000172 G2 box; other site 207559000173 Switch II region; other site 207559000174 G3 box; other site 207559000175 G4 box; other site 207559000176 G5 box; other site 207559000177 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 207559000178 G1 box; other site 207559000179 GTP/Mg2+ binding site [chemical binding]; other site 207559000180 Switch I region; other site 207559000181 G2 box; other site 207559000182 G3 box; other site 207559000183 Switch II region; other site 207559000184 G4 box; other site 207559000185 G5 box; other site 207559000186 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cd00596 207559000187 active site 207559000188 Zn-binding site [ion binding]; other site 207559000189 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 207559000190 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 207559000191 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 207559000192 homodimer interface [polypeptide binding]; other site 207559000193 substrate-cofactor binding pocket; other site 207559000194 catalytic residue [active] 207559000195 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 207559000196 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559000197 Walker A motif; other site 207559000198 ATP binding site [chemical binding]; other site 207559000199 Walker B motif; other site 207559000200 arginine finger; other site 207559000201 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 207559000202 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 207559000203 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 207559000204 recombination protein RecR; Reviewed; Region: recR; PRK00076 207559000205 RecR protein; Region: RecR; pfam02132 207559000206 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 207559000207 putative active site [active] 207559000208 putative metal-binding site [ion binding]; other site 207559000209 tetramer interface [polypeptide binding]; other site 207559000210 Peptidase family M48; Region: Peptidase_M48; cl12018 207559000211 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000213 active site 207559000214 phosphorylation site [posttranslational modification] 207559000215 intermolecular recognition site; other site 207559000216 dimerization interface [polypeptide binding]; other site 207559000217 Domain of unknown function (DUF309); Region: DUF309; cl00667 207559000218 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 207559000219 active site 207559000220 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559000221 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 207559000222 Initiation factor 2 subunit family; Region: IF-2B; pfam01008 207559000223 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559000224 metal binding site [ion binding]; metal-binding site 207559000225 active site 207559000226 I-site; other site 207559000227 tryptophan synthase, beta chain; Region: PLN02618 207559000228 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 207559000229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000230 catalytic residue [active] 207559000231 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 207559000232 4Fe-4S binding domain; Region: Fer4; cl02805 207559000233 4Fe-4S binding domain; Region: Fer4; cl02805 207559000234 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559000235 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559000236 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 207559000237 Acyltransferase family; Region: Acyl_transf_3; pfam01757 207559000238 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 207559000239 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 207559000240 dimer interface [polypeptide binding]; other site 207559000241 FMN binding site [chemical binding]; other site 207559000242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559000243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559000244 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000245 dimerization interface [polypeptide binding]; other site 207559000246 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559000247 N subunit; Region: benz_CoA_bzdN; cl11464 207559000248 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 207559000249 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 207559000250 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 207559000251 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 207559000252 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559000253 Fusaric acid resistance protein family; Region: FUSC; pfam04632 207559000254 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 207559000255 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559000256 Ligand Binding Site [chemical binding]; other site 207559000257 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 207559000258 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (...; Region: EcAsnRS_like_N; cd04318 207559000259 putative dimer interface [polypeptide binding]; other site 207559000260 putative anticodon binding site; other site 207559000261 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 207559000262 homodimer interface [polypeptide binding]; other site 207559000263 motif 1; other site 207559000264 motif 2; other site 207559000265 active site 207559000266 motif 3; other site 207559000267 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 207559000268 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 207559000269 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 207559000270 glutamine synthetase, type I; Region: GlnA; TIGR00653 207559000271 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 207559000272 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 207559000273 DNA topoisomerase I; Validated; Region: PRK06599 207559000274 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 207559000275 active site 207559000276 interdomain interaction site; other site 207559000277 putative metal-binding site [ion binding]; other site 207559000278 nucleotide binding site [chemical binding]; other site 207559000279 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 207559000280 domain I; other site 207559000281 DNA binding groove [nucleotide binding] 207559000282 phosphate binding site [ion binding]; other site 207559000283 domain II; other site 207559000284 domain III; other site 207559000285 nucleotide binding site [chemical binding]; other site 207559000286 catalytic site [active] 207559000287 domain IV; other site 207559000288 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 207559000289 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 207559000290 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 207559000291 DNA topoisomerase I; Validated; Region: PRK06599 207559000292 Peptidase family M48; Region: Peptidase_M48; cl12018 207559000293 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 207559000294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000295 active site 207559000296 phosphorylation site [posttranslational modification] 207559000297 intermolecular recognition site; other site 207559000298 dimerization interface [polypeptide binding]; other site 207559000299 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559000300 Walker A motif; other site 207559000301 ATP binding site [chemical binding]; other site 207559000302 Walker B motif; other site 207559000303 arginine finger; other site 207559000304 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559000305 sensor protein ZraS; Provisional; Region: PRK10364 207559000306 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559000307 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559000308 dimer interface [polypeptide binding]; other site 207559000309 phosphorylation site [posttranslational modification] 207559000310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000311 ATP binding site [chemical binding]; other site 207559000312 Mg2+ binding site [ion binding]; other site 207559000313 G-X-G motif; other site 207559000314 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 207559000315 dimer interface [polypeptide binding]; other site 207559000316 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 207559000317 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 207559000318 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 207559000319 active site 207559000320 dimer interface [polypeptide binding]; other site 207559000321 effector binding site; other site 207559000322 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 207559000323 TSCPD domain; Region: TSCPD; cl14834 207559000324 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 207559000325 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559000326 Walker A/P-loop; other site 207559000327 ATP binding site [chemical binding]; other site 207559000328 Q-loop/lid; other site 207559000329 ABC transporter signature motif; other site 207559000330 Walker B; other site 207559000331 D-loop; other site 207559000332 H-loop/switch region; other site 207559000333 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 207559000334 Dehydratase family; Region: ILVD_EDD; cl00340 207559000335 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 207559000336 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559000337 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000338 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559000339 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 207559000340 active site 207559000341 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559000342 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 207559000343 active site 207559000344 NlpC/P60 family; Region: NLPC_P60; cl11438 207559000345 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559000346 IHF - DNA interface [nucleotide binding]; other site 207559000347 IHF dimer interface [polypeptide binding]; other site 207559000348 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559000349 DNA binding residues [nucleotide binding] 207559000350 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 207559000351 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 207559000352 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 207559000353 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 207559000354 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 207559000355 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 207559000356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559000357 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 207559000358 Predicted permease; Region: DUF318; cl00487 207559000359 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 207559000360 Ferritin-like domain; Region: Ferritin; pfam00210 207559000361 heme binding site [chemical binding]; other site 207559000362 ferroxidase pore; other site 207559000363 ferroxidase diiron center [ion binding]; other site 207559000364 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 207559000365 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559000366 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen...; Region: AdeC; cd01295 207559000367 active site 207559000368 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559000369 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 207559000370 TM-ABC transporter signature motif; other site 207559000371 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 207559000372 TM-ABC transporter signature motif; other site 207559000373 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 207559000374 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 207559000375 Walker A/P-loop; other site 207559000376 ATP binding site [chemical binding]; other site 207559000377 Q-loop/lid; other site 207559000378 ABC transporter signature motif; other site 207559000379 Walker B; other site 207559000380 D-loop; other site 207559000381 H-loop/switch region; other site 207559000382 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 207559000383 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559000384 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 207559000385 putative ligand binding site [chemical binding]; other site 207559000386 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000387 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 207559000388 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000389 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 207559000390 PEP-CTERM motif; Region: VPEP; pfam07589 207559000391 aromatic acid decarboxylase; Validated; Region: PRK05920 207559000392 Flavoprotein; Region: Flavoprotein; cl08021 207559000393 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559000394 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 207559000395 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (...; Region: DEADc; cd00268 207559000396 ATP binding site [chemical binding]; other site 207559000397 Mg++ binding site [ion binding]; other site 207559000398 motif III; other site 207559000399 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559000400 nucleotide binding region [chemical binding]; other site 207559000401 ATP-binding site [chemical binding]; other site 207559000402 DbpA RNA binding domain; Region: DbpA; pfam03880 207559000403 Domain of unknown function (DUF364); Region: DUF364; cl00885 207559000404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000405 dimer interface [polypeptide binding]; other site 207559000406 conserved gate region; other site 207559000407 putative PBP binding loops; other site 207559000408 ABC-ATPase subunit interface; other site 207559000409 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000410 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 207559000411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559000412 DNA-binding site [nucleotide binding]; DNA binding site 207559000413 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559000414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000415 homodimer interface [polypeptide binding]; other site 207559000416 catalytic residue [active] 207559000417 AzlC protein; Region: AzlC; cl00570 207559000418 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 207559000419 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 207559000420 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 207559000421 Histidine kinase; Region: His_kinase; pfam06580 207559000422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000423 ATP binding site [chemical binding]; other site 207559000424 Mg2+ binding site [ion binding]; other site 207559000425 G-X-G motif; other site 207559000426 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 207559000427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000428 active site 207559000429 phosphorylation site [posttranslational modification] 207559000430 intermolecular recognition site; other site 207559000431 dimerization interface [polypeptide binding]; other site 207559000432 LytTr DNA-binding domain; Region: LytTR; cl04498 207559000433 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000434 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 207559000435 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559000436 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559000437 Walker A/P-loop; other site 207559000438 ATP binding site [chemical binding]; other site 207559000439 Q-loop/lid; other site 207559000440 ABC transporter signature motif; other site 207559000441 Walker B; other site 207559000442 D-loop; other site 207559000443 H-loop/switch region; other site 207559000444 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000445 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000446 dimer interface [polypeptide binding]; other site 207559000447 conserved gate region; other site 207559000448 putative PBP binding loops; other site 207559000449 ABC-ATPase subunit interface; other site 207559000450 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 207559000451 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559000452 substrate binding pocket [chemical binding]; other site 207559000453 membrane-bound complex binding site; other site 207559000454 hinge residues; other site 207559000455 threonine synthase; Validated; Region: PRK06260 207559000456 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 207559000457 homodimer interface [polypeptide binding]; other site 207559000458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000459 catalytic residue [active] 207559000460 Domain of unknown function (DUF205); Region: DUF205; cl00410 207559000461 RNB domain; Region: RNB; pfam00773 207559000462 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 207559000463 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 207559000464 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 207559000465 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559000466 catalytic residue [active] 207559000467 adenylosuccinate synthetase; Provisional; Region: PRK01117 207559000468 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-...; Region: AdSS; cd03108 207559000469 GDP-binding site [chemical binding]; other site 207559000470 ACT binding site; other site 207559000471 IMP binding site; other site 207559000472 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 207559000473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559000474 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000476 active site 207559000477 phosphorylation site [posttranslational modification] 207559000478 intermolecular recognition site; other site 207559000479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000480 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000481 active site 207559000482 phosphorylation site [posttranslational modification] 207559000483 intermolecular recognition site; other site 207559000484 dimerization interface [polypeptide binding]; other site 207559000485 photolyase PhrII; Region: phr2; TIGR00591 207559000486 DNA photolyase; Region: DNA_photolyase; pfam00875 207559000487 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 207559000488 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 207559000490 active site 207559000491 phosphorylation site [posttranslational modification] 207559000492 intermolecular recognition site; other site 207559000493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000494 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000495 active site 207559000496 phosphorylation site [posttranslational modification] 207559000497 intermolecular recognition site; other site 207559000498 dimerization interface [polypeptide binding]; other site 207559000499 FAD binding domain; Region: FAD_binding_4; pfam01565 207559000500 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559000501 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000503 dimer interface [polypeptide binding]; other site 207559000504 conserved gate region; other site 207559000505 putative PBP binding loops; other site 207559000506 ABC-ATPase subunit interface; other site 207559000507 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559000508 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559000509 Walker A/P-loop; other site 207559000510 ATP binding site [chemical binding]; other site 207559000511 Q-loop/lid; other site 207559000512 ABC transporter signature motif; other site 207559000513 Walker B; other site 207559000514 D-loop; other site 207559000515 H-loop/switch region; other site 207559000516 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000517 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000518 dimer interface [polypeptide binding]; other site 207559000519 conserved gate region; other site 207559000520 putative PBP binding loops; other site 207559000521 ABC-ATPase subunit interface; other site 207559000522 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559000523 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559000524 substrate binding pocket [chemical binding]; other site 207559000525 membrane-bound complex binding site; other site 207559000526 hinge residues; other site 207559000527 Flavin Reductases; Region: FlaRed; cl00801 207559000528 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 207559000529 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559000530 Coenzyme A binding pocket [chemical binding]; other site 207559000531 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 207559000532 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559000533 FeS/SAM binding site; other site 207559000534 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 207559000535 Adenosine specific kinase; Region: Adenosine_kin; cl00796 207559000536 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 207559000537 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559000538 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559000539 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 207559000540 seryl-tRNA synthetase; Provisional; Region: PRK05431 207559000541 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 207559000542 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 207559000543 dimer interface [polypeptide binding]; other site 207559000544 active site 207559000545 motif 1; other site 207559000546 motif 2; other site 207559000547 motif 3; other site 207559000548 RF-1 domain; Region: RF-1; cl02875 207559000549 PilZ domain; Region: PilZ; cl01260 207559000550 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559000551 hypothetical protein; Provisional; Region: PRK02250 207559000552 SEC-C motif; Region: SEC-C; cl12132 207559000553 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559000554 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559000555 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 207559000556 substrate binding site [chemical binding]; other site 207559000557 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000558 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 207559000559 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 207559000560 catalytic residues [active] 207559000561 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559000562 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559000563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559000564 hypothetical protein; Provisional; Region: PRK13560 207559000565 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559000566 putative active site [active] 207559000567 heme pocket [chemical binding]; other site 207559000568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559000569 metal binding site [ion binding]; metal-binding site 207559000570 active site 207559000571 I-site; other site 207559000572 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 207559000573 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559000574 minor groove reading motif; other site 207559000575 helix-hairpin-helix signature motif; other site 207559000576 substrate binding pocket [chemical binding]; other site 207559000577 active site 207559000578 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 207559000579 active site 207559000580 8-oxo-dGMP binding site [chemical binding]; other site 207559000581 nudix motif; other site 207559000582 metal binding site [ion binding]; metal-binding site 207559000583 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 207559000584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559000585 Walker A/P-loop; other site 207559000586 ATP binding site [chemical binding]; other site 207559000587 Q-loop/lid; other site 207559000588 ABC transporter signature motif; other site 207559000589 Walker B; other site 207559000590 D-loop; other site 207559000591 H-loop/switch region; other site 207559000592 TOBE domain; Region: TOBE_2; cl01440 207559000593 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 207559000594 Phosphotransferase enzyme family; Region: APH; pfam01636 207559000595 active site 207559000596 ATP binding site [chemical binding]; other site 207559000597 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559000598 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 207559000599 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559000600 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 207559000601 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 207559000602 active site 207559000603 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559000604 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559000605 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 207559000606 Sel1 repeat; Region: Sel1; cl02723 207559000607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000608 active site 207559000609 phosphorylation site [posttranslational modification] 207559000610 intermolecular recognition site; other site 207559000611 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 207559000612 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 207559000613 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559000614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559000615 TIGR02099 family protein; Region: TIGR02099 207559000616 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000617 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000618 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000619 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000620 Carbon starvation protein CstA; Region: CstA; cl00856 207559000621 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 207559000622 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 207559000623 active site 207559000624 HIGH motif; other site 207559000625 dimer interface [polypeptide binding]; other site 207559000626 KMSKS motif; other site 207559000627 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 207559000628 RNA binding surface [nucleotide binding]; other site 207559000629 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559000630 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 207559000631 putative active site [active] 207559000632 metal binding site [ion binding]; metal-binding site 207559000633 homodimer binding site [polypeptide binding]; other site 207559000634 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 207559000635 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 207559000636 dimer interface [polypeptide binding]; other site 207559000637 putative functional site; other site 207559000638 putative MPT binding site; other site 207559000639 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559000640 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 207559000641 Walker A/P-loop; other site 207559000642 ATP binding site [chemical binding]; other site 207559000643 Q-loop/lid; other site 207559000644 ABC transporter signature motif; other site 207559000645 Walker B; other site 207559000646 D-loop; other site 207559000647 H-loop/switch region; other site 207559000648 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 207559000649 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000650 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559000651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559000652 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 207559000653 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 207559000654 putative NAD(P) binding site [chemical binding]; other site 207559000655 putative active site [active] 207559000656 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 207559000657 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 207559000658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 207559000659 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559000660 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559000661 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559000662 dimer interface [polypeptide binding]; other site 207559000663 phosphorylation site [posttranslational modification] 207559000664 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000665 ATP binding site [chemical binding]; other site 207559000666 Mg2+ binding site [ion binding]; other site 207559000667 G-X-G motif; other site 207559000668 fumarate hydratase; Reviewed; Region: fumC; PRK00485 207559000669 Class II fumarases; Region: Fumarase_classII; cd01362 207559000670 active site 207559000671 tetramer interface [polypeptide binding]; other site 207559000672 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559000673 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559000674 substrate binding pocket [chemical binding]; other site 207559000675 membrane-bound complex binding site; other site 207559000676 hinge residues; other site 207559000677 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559000678 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_II; cd01993 207559000679 Ligand Binding Site [chemical binding]; other site 207559000680 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 207559000681 chaperone protein DnaJ; Provisional; Region: PRK14301 207559000682 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 207559000683 HSP70 interaction site [polypeptide binding]; other site 207559000684 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 207559000685 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 207559000686 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a...; Region: MoaC_PE; cd01420 207559000687 trimer interface [polypeptide binding]; other site 207559000688 dimer interface [polypeptide binding]; other site 207559000689 putative active site [active] 207559000690 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 207559000691 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 207559000692 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 207559000693 ABC transporter; Region: ABC_tran_2; pfam12848 207559000694 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 207559000695 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 207559000696 active site 207559000697 8-oxo-dGMP binding site [chemical binding]; other site 207559000698 nudix motif; other site 207559000699 metal binding site [ion binding]; metal-binding site 207559000700 Protein of unknown function, DUF606; Region: DUF606; cl01273 207559000701 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 207559000702 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 207559000703 octamerization interface [polypeptide binding]; other site 207559000704 diferric-oxygen binding site [ion binding]; other site 207559000705 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 207559000706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559000707 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 207559000708 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 207559000709 Aminotransferase class IV; Region: Aminotran_4; pfam01063 207559000710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000711 catalytic residue [active] 207559000712 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559000713 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559000714 hypothetical protein; Provisional; Region: PRK13560 207559000715 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 207559000716 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559000717 dimer interface [polypeptide binding]; other site 207559000718 phosphorylation site [posttranslational modification] 207559000719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000720 ATP binding site [chemical binding]; other site 207559000721 Mg2+ binding site [ion binding]; other site 207559000722 G-X-G motif; other site 207559000723 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000725 active site 207559000726 phosphorylation site [posttranslational modification] 207559000727 intermolecular recognition site; other site 207559000728 dimerization interface [polypeptide binding]; other site 207559000729 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559000730 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 207559000731 dimerization interface [polypeptide binding]; other site 207559000732 ligand binding site [chemical binding]; other site 207559000733 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 207559000734 TM-ABC transporter signature motif; other site 207559000735 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 207559000736 TM-ABC transporter signature motif; other site 207559000737 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 207559000738 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 207559000739 Walker A/P-loop; other site 207559000740 ATP binding site [chemical binding]; other site 207559000741 Q-loop/lid; other site 207559000742 ABC transporter signature motif; other site 207559000743 Walker B; other site 207559000744 D-loop; other site 207559000745 H-loop/switch region; other site 207559000746 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 207559000747 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 207559000748 Walker A/P-loop; other site 207559000749 ATP binding site [chemical binding]; other site 207559000750 Q-loop/lid; other site 207559000751 ABC transporter signature motif; other site 207559000752 Walker B; other site 207559000753 D-loop; other site 207559000754 H-loop/switch region; other site 207559000755 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559000756 Zn2+ binding site [ion binding]; other site 207559000757 Mg2+ binding site [ion binding]; other site 207559000758 4Fe-4S binding domain; Region: Fer4; cl02805 207559000759 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 207559000760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559000761 Coenzyme A binding pocket [chemical binding]; other site 207559000762 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559000763 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 207559000764 Transglycosylase; Region: Transgly; cl07896 207559000765 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 207559000766 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 207559000767 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 207559000768 MG2 domain; Region: A2M_N; pfam01835 207559000769 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 207559000770 Alpha-2-macroglobulin family; Region: A2M; pfam00207 207559000771 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 207559000772 surface patch; other site 207559000773 thioester region; other site 207559000774 specificity defining residues; other site 207559000775 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559000776 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559000777 Walker A/P-loop; other site 207559000778 ATP binding site [chemical binding]; other site 207559000779 Q-loop/lid; other site 207559000780 ABC transporter signature motif; other site 207559000781 Walker B; other site 207559000782 D-loop; other site 207559000783 H-loop/switch region; other site 207559000784 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559000785 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559000786 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559000787 Walker A/P-loop; other site 207559000788 ATP binding site [chemical binding]; other site 207559000789 Q-loop/lid; other site 207559000790 ABC transporter signature motif; other site 207559000791 Walker B; other site 207559000792 D-loop; other site 207559000793 H-loop/switch region; other site 207559000794 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559000795 dipeptide transporter; Provisional; Region: PRK10913 207559000796 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000797 dimer interface [polypeptide binding]; other site 207559000798 conserved gate region; other site 207559000799 putative PBP binding loops; other site 207559000800 ABC-ATPase subunit interface; other site 207559000801 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559000802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000803 dimer interface [polypeptide binding]; other site 207559000804 conserved gate region; other site 207559000805 putative PBP binding loops; other site 207559000806 ABC-ATPase subunit interface; other site 207559000807 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 207559000808 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559000809 aspartate aminotransferase; Provisional; Region: PRK08361 207559000810 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559000811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000812 homodimer interface [polypeptide binding]; other site 207559000813 catalytic residue [active] 207559000814 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 207559000815 ATP cone domain; Region: ATP-cone; pfam03477 207559000816 Class III ribonucleotide reductase; Region: RNR_III; cd01675 207559000817 effector binding site; other site 207559000818 active site 207559000819 Zn binding site [ion binding]; other site 207559000820 glycine loop; other site 207559000821 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 207559000822 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559000823 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 207559000824 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 207559000825 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 207559000826 High-affinity nickel-transport protein; Region: NicO; cl00964 207559000827 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 207559000828 Propionate catabolism activator; Region: PrpR_N; pfam06506 207559000829 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559000830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559000831 Walker A motif; other site 207559000832 ATP binding site [chemical binding]; other site 207559000833 Walker B motif; other site 207559000834 arginine finger; other site 207559000835 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559000836 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 207559000837 Cytochrome c; Region: Cytochrom_C; cl11414 207559000838 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 207559000839 putative hydrophobic ligand binding site [chemical binding]; other site 207559000840 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 207559000841 enolase; Provisional; Region: eno; PRK00077 207559000842 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 207559000843 dimer interface [polypeptide binding]; other site 207559000844 metal binding site [ion binding]; metal-binding site 207559000845 substrate binding pocket [chemical binding]; other site 207559000846 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 207559000847 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 207559000848 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 207559000849 homodimer interface [polypeptide binding]; other site 207559000850 NADP binding site [chemical binding]; other site 207559000851 substrate binding site [chemical binding]; other site 207559000852 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 207559000853 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 207559000854 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 207559000855 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 207559000856 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 207559000857 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559000858 EamA-like transporter family; Region: EamA; cl01037 207559000859 EamA-like transporter family; Region: EamA; cl01037 207559000860 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl11561 207559000861 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 207559000862 Zn binding site [ion binding]; other site 207559000863 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 207559000864 dimer interface [polypeptide binding]; other site 207559000865 catalytic triad [active] 207559000866 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 207559000867 catalytic residues [active] 207559000868 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2933 207559000869 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559000870 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 207559000871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559000872 dimer interface [polypeptide binding]; other site 207559000873 conserved gate region; other site 207559000874 putative PBP binding loops; other site 207559000875 ABC-ATPase subunit interface; other site 207559000876 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559000877 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 207559000878 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 207559000879 Cl- selectivity filter; other site 207559000880 Cl- binding residues [ion binding]; other site 207559000881 pore gating glutamate residue; other site 207559000882 dimer interface [polypeptide binding]; other site 207559000883 FOG: CBS domain [General function prediction only]; Region: COG0517 207559000884 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC...; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 207559000885 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 207559000886 FAD binding domain; Region: FAD_binding_4; pfam01565 207559000887 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 207559000888 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559000889 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559000890 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 207559000891 YceG-like family; Region: YceG; pfam02618 207559000892 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 207559000893 dimerization interface [polypeptide binding]; other site 207559000894 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559000895 PAS fold; Region: PAS_4; pfam08448 207559000896 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559000897 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559000898 Walker A motif; other site 207559000899 ATP binding site [chemical binding]; other site 207559000900 Walker B motif; other site 207559000901 arginine finger; other site 207559000902 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559000903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000904 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559000905 dimer interface [polypeptide binding]; other site 207559000906 phosphorylation site [posttranslational modification] 207559000907 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000908 ATP binding site [chemical binding]; other site 207559000909 G-X-G motif; other site 207559000910 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000912 active site 207559000913 phosphorylation site [posttranslational modification] 207559000914 intermolecular recognition site; other site 207559000915 dimerization interface [polypeptide binding]; other site 207559000916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 207559000918 active site 207559000919 phosphorylation site [posttranslational modification] 207559000920 intermolecular recognition site; other site 207559000921 dimerization interface [polypeptide binding]; other site 207559000922 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000924 active site 207559000925 phosphorylation site [posttranslational modification] 207559000926 intermolecular recognition site; other site 207559000927 dimerization interface [polypeptide binding]; other site 207559000928 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 207559000929 transmembrane helices; other site 207559000930 Citrate transporter; Region: CitMHS; pfam03600 207559000931 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000933 active site 207559000934 phosphorylation site [posttranslational modification] 207559000935 intermolecular recognition site; other site 207559000936 dimerization interface [polypeptide binding]; other site 207559000937 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559000939 active site 207559000940 phosphorylation site [posttranslational modification] 207559000941 intermolecular recognition site; other site 207559000942 dimerization interface [polypeptide binding]; other site 207559000943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559000944 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 207559000945 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-; Region: HisF; cd04731 207559000946 substrate binding site [chemical binding]; other site 207559000947 glutamase interaction surface [polypeptide binding]; other site 207559000948 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 207559000949 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 207559000950 putative active site [active] 207559000951 oxyanion strand; other site 207559000952 catalytic triad [active] 207559000953 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 207559000954 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559000955 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559000956 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 207559000957 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559000958 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559000959 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 207559000960 IMP binding site; other site 207559000961 dimer interface [polypeptide binding]; other site 207559000962 interdomain contacts; other site 207559000963 partial ornithine binding site; other site 207559000964 amidophosphoribosyltransferase; Region: purF; TIGR01134 207559000965 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 207559000966 active site 207559000967 tetramer interface [polypeptide binding]; other site 207559000968 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559000969 KpsF/GutQ family protein; Region: kpsF; TIGR00393 207559000970 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-...; Region: SIS_Kpsf; cd05014 207559000971 putative active site [active] 207559000972 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 207559000973 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 207559000974 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559000975 active site 207559000976 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 207559000977 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 207559000978 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 207559000979 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559000980 ATP binding site [chemical binding]; other site 207559000981 putative Mg++ binding site [ion binding]; other site 207559000982 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559000983 nucleotide binding region [chemical binding]; other site 207559000984 ATP-binding site [chemical binding]; other site 207559000985 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 207559000986 Precorrin-8X methylmutase; Region: CbiC; pfam02570 207559000987 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 207559000988 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559000989 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 207559000990 catalytic triad [active] 207559000991 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl11561 207559000992 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559000993 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559000994 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559000995 Predicted membrane protein [Function unknown]; Region: COG4125 207559000996 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 207559000997 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 207559000998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559000999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559001000 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 207559001001 dimerization interface [polypeptide binding]; other site 207559001002 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 207559001003 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 207559001004 Walker A motif/ATP binding site; other site 207559001005 Walker B motif; other site 207559001006 Flagellar assembly protein FliH; Region: FliH; pfam02108 207559001007 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 207559001008 FliG C-terminal domain; Region: FliG_C; pfam01706 207559001009 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 207559001010 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 207559001011 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 207559001012 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 207559001013 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 207559001014 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 207559001015 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 207559001016 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 207559001017 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 207559001018 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559001019 binding surface 207559001020 TPR motif; other site 207559001021 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559001022 binding surface 207559001023 TPR motif; other site 207559001024 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 207559001025 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 207559001026 NAD binding site [chemical binding]; other site 207559001027 substrate binding site [chemical binding]; other site 207559001028 homodimer interface [polypeptide binding]; other site 207559001029 active site 207559001030 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 207559001031 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 207559001032 putative trimer interface [polypeptide binding]; other site 207559001033 putative CoA binding site [chemical binding]; other site 207559001034 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 207559001035 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 207559001036 NAD(P) binding site [chemical binding]; other site 207559001037 homodimer interface [polypeptide binding]; other site 207559001038 substrate binding site [chemical binding]; other site 207559001039 active site 207559001040 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 207559001041 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 207559001042 inhibitor-cofactor binding pocket; inhibition site 207559001043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001044 catalytic residue [active] 207559001045 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 207559001046 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001047 putative ADP-binding pocket [chemical binding]; other site 207559001048 Bacterial sugar transferase; Region: Bac_transf; cl00939 207559001049 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 207559001050 dimerization interface [polypeptide binding]; other site 207559001051 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 207559001052 ATP binding site [chemical binding]; other site 207559001053 Hydrogenase formation hypA family; Region: HypD; cl12072 207559001054 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 207559001055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559001056 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 207559001057 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 207559001058 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559001059 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 207559001060 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559001061 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001062 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559001063 CHASE4 domain; Region: CHASE4; cl01308 207559001064 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 207559001065 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559001066 dimerization interface [polypeptide binding]; other site 207559001067 PAS domain S-box; Region: sensory_box; TIGR00229 207559001068 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559001069 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 207559001070 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001071 dimer interface [polypeptide binding]; other site 207559001072 phosphorylation site [posttranslational modification] 207559001073 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001074 ATP binding site [chemical binding]; other site 207559001075 Mg2+ binding site [ion binding]; other site 207559001076 G-X-G motif; other site 207559001077 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001079 active site 207559001080 phosphorylation site [posttranslational modification] 207559001081 intermolecular recognition site; other site 207559001082 dimerization interface [polypeptide binding]; other site 207559001083 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 207559001084 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559001085 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 207559001086 active site 207559001087 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 207559001088 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559001089 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559001090 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 207559001091 active site residue [active] 207559001092 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 207559001093 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 207559001094 G1 box; other site 207559001095 GTP/Mg2+ binding site [chemical binding]; other site 207559001096 Switch I region; other site 207559001097 G2 box; other site 207559001098 G3 box; other site 207559001099 Switch II region; other site 207559001100 G4 box; other site 207559001101 G5 box; other site 207559001102 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 207559001103 purine monophosphate binding site [chemical binding]; other site 207559001104 dimer interface [polypeptide binding]; other site 207559001105 putative catalytic residues [active] 207559001106 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 207559001107 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 207559001108 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 207559001109 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 207559001110 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 207559001111 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 207559001112 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559001113 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559001114 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 207559001115 P-loop; other site 207559001116 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 207559001117 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 207559001118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559001119 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 207559001120 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 207559001121 DNA binding residues [nucleotide binding] 207559001122 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001124 active site 207559001125 phosphorylation site [posttranslational modification] 207559001126 intermolecular recognition site; other site 207559001127 dimerization interface [polypeptide binding]; other site 207559001128 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 207559001129 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 207559001130 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 207559001131 FMN binding site [chemical binding]; other site 207559001132 active site 207559001133 catalytic residues [active] 207559001134 substrate binding site [chemical binding]; other site 207559001135 LytB protein; Region: LYTB; cl00507 207559001136 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 207559001137 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559001138 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559001139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001140 active site 207559001141 phosphorylation site [posttranslational modification] 207559001142 intermolecular recognition site; other site 207559001143 dimerization interface [polypeptide binding]; other site 207559001144 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cl02429 207559001145 binding surface 207559001146 TPR motif; other site 207559001147 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559001148 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559001149 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559001150 substrate binding pocket [chemical binding]; other site 207559001151 membrane-bound complex binding site; other site 207559001152 hinge residues; other site 207559001153 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559001154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559001155 dimer interface [polypeptide binding]; other site 207559001156 conserved gate region; other site 207559001157 putative PBP binding loops; other site 207559001158 ABC-ATPase subunit interface; other site 207559001159 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 207559001160 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 207559001161 PYR/PP interface [polypeptide binding]; other site 207559001162 dimer interface [polypeptide binding]; other site 207559001163 TPP binding site [chemical binding]; other site 207559001164 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 207559001165 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 207559001166 TPP-binding site [chemical binding]; other site 207559001167 dimer interface [polypeptide binding]; other site 207559001168 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559001169 putative valine binding site [chemical binding]; other site 207559001170 dimer interface [polypeptide binding]; other site 207559001171 NodT family; Region: outer_NodT; TIGR01845 207559001172 Outer membrane efflux protein; Region: OEP; pfam02321 207559001173 Outer membrane efflux protein; Region: OEP; pfam02321 207559001174 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 207559001175 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559001177 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 207559001178 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 207559001179 glycerol-3-phosphate dehydrogenase; Region: PLN02464 207559001180 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 207559001181 amphipathic channel; other site 207559001182 Asn-Pro-Ala signature motifs; other site 207559001183 glycerol kinase; Provisional; Region: glpK; PRK00047 207559001184 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559001185 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 207559001186 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 207559001187 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 207559001188 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559001189 Walker A/P-loop; other site 207559001190 ATP binding site [chemical binding]; other site 207559001191 Q-loop/lid; other site 207559001192 ABC transporter signature motif; other site 207559001193 Walker B; other site 207559001194 D-loop; other site 207559001195 H-loop/switch region; other site 207559001196 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 207559001197 active site 207559001198 catalytic triad [active] 207559001199 oxyanion hole [active] 207559001200 switch loop; other site 207559001201 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS); Region: YbaK_deacylase; cd00002 207559001202 putative deacylase active site [active] 207559001203 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 207559001204 KduI/IolB family; Region: KduI; cl01508 207559001205 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 207559001206 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase...; Region: OAT_like; cd00610 207559001207 inhibitor-cofactor binding pocket; inhibition site 207559001208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001209 catalytic residue [active] 207559001210 argininosuccinate lyase; Provisional; Region: PRK02186 207559001211 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559001212 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 207559001213 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559001214 S-adenosylmethionine binding site [chemical binding]; other site 207559001215 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559001216 active site 207559001217 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 207559001218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559001219 Coenzyme A binding pocket [chemical binding]; other site 207559001220 NeuB family; Region: NeuB; cl00496 207559001221 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 207559001222 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 207559001223 NADP binding site [chemical binding]; other site 207559001224 active site 207559001225 putative substrate binding site [chemical binding]; other site 207559001226 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559001227 active site 207559001228 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 207559001229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001230 NAD(P) binding site [chemical binding]; other site 207559001231 active site 207559001232 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559001233 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559001234 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559001235 active site 207559001236 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559001237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559001238 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559001239 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559001240 active site 207559001241 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559001242 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559001243 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559001244 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559001245 active site 207559001246 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 207559001247 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 207559001248 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 207559001249 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 207559001250 NADP-binding site; other site 207559001251 homotetramer interface [polypeptide binding]; other site 207559001252 substrate binding site [chemical binding]; other site 207559001253 homodimer interface [polypeptide binding]; other site 207559001254 active site 207559001255 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001256 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559001257 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 207559001258 octamerization interface [polypeptide binding]; other site 207559001259 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 207559001260 diferric-oxygen binding site [ion binding]; other site 207559001261 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 207559001262 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 207559001263 active site 207559001264 catalytic site [active] 207559001265 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 207559001266 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 207559001267 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 207559001268 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 207559001269 active site 207559001270 metal binding site [ion binding]; metal-binding site 207559001271 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 207559001272 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 207559001273 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559001274 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559001275 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559001276 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559001277 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 207559001278 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 207559001279 Walker A/P-loop; other site 207559001280 ATP binding site [chemical binding]; other site 207559001281 Q-loop/lid; other site 207559001282 ABC transporter signature motif; other site 207559001283 Walker B; other site 207559001284 D-loop; other site 207559001285 H-loop/switch region; other site 207559001286 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16...; Region: OM_channels; cl00284 207559001287 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 207559001288 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 207559001289 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559001290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559001291 dimer interface [polypeptide binding]; other site 207559001292 conserved gate region; other site 207559001293 putative PBP binding loops; other site 207559001294 ABC-ATPase subunit interface; other site 207559001295 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 207559001296 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559001297 dimer interface [polypeptide binding]; other site 207559001298 conserved gate region; other site 207559001299 putative PBP binding loops; other site 207559001300 ABC-ATPase subunit interface; other site 207559001301 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 207559001302 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559001303 Walker A/P-loop; other site 207559001304 ATP binding site [chemical binding]; other site 207559001305 Q-loop/lid; other site 207559001306 ABC transporter signature motif; other site 207559001307 Walker B; other site 207559001308 D-loop; other site 207559001309 H-loop/switch region; other site 207559001310 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559001311 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559001312 Walker A/P-loop; other site 207559001313 ATP binding site [chemical binding]; other site 207559001314 Q-loop/lid; other site 207559001315 ABC transporter signature motif; other site 207559001316 Walker B; other site 207559001317 D-loop; other site 207559001318 H-loop/switch region; other site 207559001319 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559001320 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 207559001321 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 207559001322 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559001323 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559001324 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 207559001325 Gram-negative bacterial tonB protein; Region: TonB; cl10048 207559001326 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559001327 TPR motif; other site 207559001328 binding surface 207559001329 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559001330 binding surface 207559001331 TPR motif; other site 207559001332 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559001333 binding surface 207559001334 TPR motif; other site 207559001335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001336 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559001337 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559001338 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559001339 substrate binding pocket [chemical binding]; other site 207559001340 membrane-bound complex binding site; other site 207559001341 hinge residues; other site 207559001342 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559001343 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559001344 Sulfatase; Region: Sulfatase; cl10460 207559001345 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 207559001346 ligand binding site [chemical binding]; other site 207559001347 flexible hinge region; other site 207559001348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559001349 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 207559001350 catalytic residues [active] 207559001351 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559001352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559001353 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 207559001354 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 207559001355 dimer interface [polypeptide binding]; other site 207559001356 PYR/PP interface [polypeptide binding]; other site 207559001357 TPP binding site [chemical binding]; other site 207559001358 substrate binding site [chemical binding]; other site 207559001359 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 207559001360 TPP-binding site; other site 207559001361 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559001362 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 207559001363 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559001364 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559001365 molybdopterin cofactor binding site; other site 207559001366 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_CT_Formate-Dh_H; cd02790 207559001367 molybdopterin cofactor binding site; other site 207559001368 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 207559001369 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559001370 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 207559001371 4Fe-4S binding domain; Region: Fer4; cl02805 207559001372 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559001373 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 207559001374 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 207559001375 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559001376 Transposase IS200 like; Region: Y1_Tnp; cl00848 207559001377 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 207559001378 putative ADP-binding pocket [chemical binding]; other site 207559001379 O-Antigen ligase; Region: Wzy_C; cl04850 207559001380 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 207559001381 Bacterial sugar transferase; Region: Bac_transf; cl00939 207559001382 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559001383 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 207559001384 Walker A motif; other site 207559001385 ATP binding site [chemical binding]; other site 207559001386 Walker B motif; other site 207559001387 arginine finger; other site 207559001388 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 207559001389 Transposase domain (DUF772); Region: DUF772; cl12084 207559001390 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559001391 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559001392 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001393 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559001394 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559001395 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001396 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559001397 FeoA domain; Region: FeoA; cl00838 207559001398 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559001399 putative DNA binding helix; other site 207559001400 metal binding site 2 [ion binding]; metal-binding site 207559001401 metal binding site 1 [ion binding]; metal-binding site 207559001402 dimer interface [polypeptide binding]; other site 207559001403 structural Zn2+ binding site [ion binding]; other site 207559001404 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 207559001405 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001406 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559001407 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 207559001408 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 207559001409 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 207559001410 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 207559001411 glutaminase active site [active] 207559001412 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 207559001413 dimer interface [polypeptide binding]; other site 207559001414 active site 207559001415 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 207559001416 dimer interface [polypeptide binding]; other site 207559001417 active site 207559001418 HPP family; Region: HPP; pfam04982 207559001419 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1-...; Region: HAM1; cd00515 207559001420 active site 207559001421 dimerization interface [polypeptide binding]; other site 207559001422 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559001423 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001424 dimer interface [polypeptide binding]; other site 207559001425 phosphorylation site [posttranslational modification] 207559001426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001427 ATP binding site [chemical binding]; other site 207559001428 Mg2+ binding site [ion binding]; other site 207559001429 G-X-G motif; other site 207559001430 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559001431 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 207559001432 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559001433 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 207559001434 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 207559001435 RNA binding site [nucleotide binding]; other site 207559001436 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 207559001437 RNA binding site [nucleotide binding]; other site 207559001438 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559001439 RNA binding site [nucleotide binding]; other site 207559001440 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559001441 RNA binding site [nucleotide binding]; other site 207559001442 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 207559001443 RNA binding site [nucleotide binding]; other site 207559001444 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559001445 RNA binding site [nucleotide binding]; other site 207559001446 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 207559001447 tandem repeat interface [polypeptide binding]; other site 207559001448 oligomer interface [polypeptide binding]; other site 207559001449 active site residues [active] 207559001450 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 207559001451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559001452 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 207559001453 catalytic core [active] 207559001454 methionine aminotransferase; Validated; Region: PRK09082 207559001455 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559001456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001457 homodimer interface [polypeptide binding]; other site 207559001458 catalytic residue [active] 207559001459 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 207559001460 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559001461 FeS/SAM binding site; other site 207559001462 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559001463 IHF - DNA interface [nucleotide binding]; other site 207559001464 IHF dimer interface [polypeptide binding]; other site 207559001465 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 207559001466 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 207559001467 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 207559001468 Sporulation related domain; Region: SPOR; cl10051 207559001469 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 207559001470 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 207559001471 active site 207559001472 catalytic residues [active] 207559001473 metal binding site [ion binding]; metal-binding site 207559001474 Cache domain; Region: Cache_1; pfam02743 207559001475 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 207559001476 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559001477 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 207559001478 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559001479 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 207559001480 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 207559001481 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559001482 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 207559001483 catalytic triad [active] 207559001484 EamA-like transporter family; Region: EamA; cl01037 207559001485 EamA-like transporter family; Region: EamA; cl01037 207559001486 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 207559001487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 207559001488 Sporulation related domain; Region: SPOR; cl10051 207559001489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001490 active site 207559001491 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 207559001492 phosphorylation site [posttranslational modification] 207559001493 intermolecular recognition site; other site 207559001494 dimerization interface [polypeptide binding]; other site 207559001495 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559001496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001497 metal binding site [ion binding]; metal-binding site 207559001498 active site 207559001499 I-site; other site 207559001500 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559001501 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001502 ATP binding site [chemical binding]; other site 207559001503 G-X-G motif; other site 207559001504 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001506 active site 207559001507 phosphorylation site [posttranslational modification] 207559001508 intermolecular recognition site; other site 207559001509 dimerization interface [polypeptide binding]; other site 207559001510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559001511 Integrase core domain; Region: rve; cl01316 207559001512 PAS domain S-box; Region: sensory_box; TIGR00229 207559001513 PAS fold; Region: PAS_4; pfam08448 207559001514 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 207559001515 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001516 dimer interface [polypeptide binding]; other site 207559001517 phosphorylation site [posttranslational modification] 207559001518 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 207559001519 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559001520 FeS/SAM binding site; other site 207559001521 HemN C-terminal region; Region: HemN_C; pfam06969 207559001522 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 207559001523 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 207559001524 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 207559001525 oligonucleotide binding site [chemical binding]; other site 207559001526 homodimer interface [polypeptide binding]; other site 207559001527 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559001528 FeS/SAM binding site; other site 207559001529 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 207559001530 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559001531 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559001532 Protein of unknown function, DUF399; Region: DUF399; cl01139 207559001533 Protein of unknown function, DUF399; Region: DUF399; cl01139 207559001534 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated...; Region: PDZ; cd00136 207559001535 protein binding site [polypeptide binding]; other site 207559001536 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 207559001537 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 207559001538 DNA binding site [nucleotide binding] 207559001539 catalytic residue [active] 207559001540 H2TH interface [polypeptide binding]; other site 207559001541 putative catalytic residues [active] 207559001542 turnover-facilitating residue; other site 207559001543 intercalation triad [nucleotide binding]; other site 207559001544 8OG recognition residue [nucleotide binding]; other site 207559001545 putative reading head residues; other site 207559001546 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 207559001547 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 207559001548 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001549 dimer interface [polypeptide binding]; other site 207559001550 phosphorylation site [posttranslational modification] 207559001551 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001552 ATP binding site [chemical binding]; other site 207559001553 Mg2+ binding site [ion binding]; other site 207559001554 G-X-G motif; other site 207559001555 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001557 active site 207559001558 phosphorylation site [posttranslational modification] 207559001559 intermolecular recognition site; other site 207559001560 dimerization interface [polypeptide binding]; other site 207559001561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001562 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001563 active site 207559001564 phosphorylation site [posttranslational modification] 207559001565 intermolecular recognition site; other site 207559001566 dimerization interface [polypeptide binding]; other site 207559001567 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 207559001568 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 207559001569 hinge; other site 207559001570 active site 207559001571 Competence protein; Region: Competence; cl00471 207559001572 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559001573 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559001574 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001575 PAS fold; Region: PAS; pfam00989 207559001576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559001577 putative active site [active] 207559001578 heme pocket [chemical binding]; other site 207559001579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001580 metal binding site [ion binding]; metal-binding site 207559001581 active site 207559001582 I-site; other site 207559001583 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559001584 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001585 putative catalytic site [active] 207559001586 putative metal binding site [ion binding]; other site 207559001587 putative phosphate binding site [ion binding]; other site 207559001588 Divergent AAA domain; Region: AAA_4; pfam04326 207559001589 TIGR00300 family protein; Region: TIGR00300 207559001590 Acylphosphatase; Region: Acylphosphatase; cl00551 207559001591 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 207559001592 HypF finger; Region: zf-HYPF; pfam07503 207559001593 HypF finger; Region: zf-HYPF; pfam07503 207559001594 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 207559001595 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 207559001596 non-specific DNA binding site [nucleotide binding]; other site 207559001597 salt bridge; other site 207559001598 sequence-specific DNA binding site [nucleotide binding]; other site 207559001599 Cupin domain; Region: Cupin_2; cl09118 207559001600 AMP-binding domain protein; Validated; Region: PRK08315 207559001601 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559001602 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559001603 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559001604 PAS fold; Region: PAS_3; pfam08447 207559001605 putative active site [active] 207559001606 heme pocket [chemical binding]; other site 207559001607 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559001608 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001609 dimer interface [polypeptide binding]; other site 207559001610 phosphorylation site [posttranslational modification] 207559001611 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001612 ATP binding site [chemical binding]; other site 207559001613 Mg2+ binding site [ion binding]; other site 207559001614 G-X-G motif; other site 207559001615 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 207559001616 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 207559001617 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 207559001618 P loop; other site 207559001619 GTP binding site [chemical binding]; other site 207559001620 Cytochrome c; Region: Cytochrom_C; cl11414 207559001621 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559001622 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559001623 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 207559001624 putative active site [active] 207559001625 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001626 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 207559001627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001628 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559001629 Cation transport protein; Region: TrkH; cl10514 207559001630 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 207559001631 Cation transport protein; Region: TrkH; cl10514 207559001632 multifunctional aminopeptidase A; Provisional; Region: PRK00913 207559001633 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 207559001634 interface (dimer of trimers) [polypeptide binding]; other site 207559001635 Substrate-binding/catalytic site; other site 207559001636 Zn-binding sites [ion binding]; other site 207559001637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001638 metal binding site [ion binding]; metal-binding site 207559001639 active site 207559001640 I-site; other site 207559001641 arginine decarboxylase; Provisional; Region: PRK05354 207559001642 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 207559001643 dimer interface [polypeptide binding]; other site 207559001644 active site 207559001645 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559001646 catalytic residues [active] 207559001647 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 207559001648 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 207559001649 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 207559001650 NAD(P) binding site [chemical binding]; other site 207559001651 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 207559001652 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 207559001653 dimer interface [polypeptide binding]; other site 207559001654 active site 207559001655 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559001656 catalytic residues [active] 207559001657 substrate binding site [chemical binding]; other site 207559001658 Arginase family; Region: Arginase; cl00306 207559001659 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 207559001660 putative CheA interaction surface; other site 207559001661 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 207559001662 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 207559001663 LemA family; Region: LemA; cl00742 207559001664 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001665 heme-binding residues [chemical binding]; other site 207559001666 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001667 heme-binding residues [chemical binding]; other site 207559001668 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001669 heme-binding residues [chemical binding]; other site 207559001670 C subunit; Region: rnfC; TIGR01945 207559001671 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 207559001672 FMN-binding domain; Region: FMN_bind; cl01081 207559001673 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 207559001674 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 207559001675 ferredoxin; Validated; Region: PRK07118 207559001676 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 207559001677 ApbE family; Region: ApbE; cl00643 207559001678 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559001679 Ligand Binding Site [chemical binding]; other site 207559001680 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 207559001681 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 207559001682 putative active site [active] 207559001683 catalytic site [active] 207559001684 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 207559001685 putative active site [active] 207559001686 catalytic site [active] 207559001687 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559001688 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 207559001689 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 207559001690 putative ADP-binding pocket [chemical binding]; other site 207559001691 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 207559001692 metal ion-dependent adhesion site (MIDAS); other site 207559001693 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 207559001694 Uncharacterised ArCR, COG2043; Region: DUF169; cl00894 207559001695 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559001696 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559001697 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559001698 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559001699 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559001700 putative active site [active] 207559001701 heme pocket [chemical binding]; other site 207559001702 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001703 dimer interface [polypeptide binding]; other site 207559001704 phosphorylation site [posttranslational modification] 207559001705 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001706 ATP binding site [chemical binding]; other site 207559001707 Mg2+ binding site [ion binding]; other site 207559001708 G-X-G motif; other site 207559001709 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001711 active site 207559001712 phosphorylation site [posttranslational modification] 207559001713 intermolecular recognition site; other site 207559001714 dimerization interface [polypeptide binding]; other site 207559001715 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 207559001716 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559001717 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 207559001718 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 207559001719 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 207559001720 Walker A/P-loop; other site 207559001721 ATP binding site [chemical binding]; other site 207559001722 Q-loop/lid; other site 207559001723 ABC transporter signature motif; other site 207559001724 Walker B; other site 207559001725 D-loop; other site 207559001726 H-loop/switch region; other site 207559001727 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 207559001728 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 207559001729 Walker A/P-loop; other site 207559001730 ATP binding site [chemical binding]; other site 207559001731 Q-loop/lid; other site 207559001732 ABC transporter signature motif; other site 207559001733 Walker B; other site 207559001734 D-loop; other site 207559001735 H-loop/switch region; other site 207559001736 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 207559001737 TM-ABC transporter signature motif; other site 207559001738 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 207559001739 TM-ABC transporter signature motif; other site 207559001740 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559001741 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 207559001742 dimerization interface [polypeptide binding]; other site 207559001743 ligand binding site [chemical binding]; other site 207559001744 Integrase core domain; Region: rve; cl01316 207559001745 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559001746 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 207559001747 active site 207559001748 Int/Topo IB signature motif; other site 207559001749 DNA binding site [nucleotide binding] 207559001750 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 207559001751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559001752 DNA-binding site [nucleotide binding]; DNA binding site 207559001753 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559001754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001755 homodimer interface [polypeptide binding]; other site 207559001756 catalytic residue [active] 207559001757 EamA-like transporter family; Region: EamA; cl01037 207559001758 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559001759 putative transposase OrfB; Reviewed; Region: PHA02517 207559001760 Integrase core domain; Region: rve; cl01316 207559001761 EamA-like transporter family; Region: EamA; cl01037 207559001762 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 207559001763 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559001764 active site 207559001765 HIGH motif; other site 207559001766 nucleotide binding site [chemical binding]; other site 207559001767 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 207559001768 KMSKS motif; other site 207559001769 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 207559001770 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 207559001771 active site 207559001772 substrate binding site [chemical binding]; other site 207559001773 catalytic site [active] 207559001774 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 207559001775 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 207559001776 ligand binding site [chemical binding]; other site 207559001777 flexible hinge region; other site 207559001778 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain...; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 207559001779 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 207559001780 metal binding triad; other site 207559001781 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 207559001782 Sodium:solute symporter family; Region: SSF; cl00456 207559001783 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 207559001784 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 207559001785 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 207559001786 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559001787 DctM-like transporters; Region: DctM; pfam06808 207559001788 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559001789 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 207559001790 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 207559001791 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 207559001792 active site 207559001793 dimer interface [polypeptide binding]; other site 207559001794 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 207559001795 tetramer interfaces [polypeptide binding]; other site 207559001796 binuclear metal-binding site [ion binding]; other site 207559001797 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 207559001798 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559001799 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 207559001800 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559001801 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559001802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559001803 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559001804 Walker A motif; other site 207559001805 ATP binding site [chemical binding]; other site 207559001806 Walker B motif; other site 207559001807 arginine finger; other site 207559001808 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559001809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559001810 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559001811 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559001812 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 207559001813 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 207559001814 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 207559001815 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001816 heme-binding residues [chemical binding]; other site 207559001817 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001818 heme-binding residues [chemical binding]; other site 207559001819 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 207559001820 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001821 heme-binding residues [chemical binding]; other site 207559001822 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001823 heme-binding residues [chemical binding]; other site 207559001824 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-...; Region: AP2Ec; cl12060 207559001825 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 207559001826 AP (apurinic/apyrimidinic) site pocket; other site 207559001827 DNA interaction; other site 207559001828 Metal-binding active site; metal-binding site 207559001829 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559001830 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559001831 PAS domain S-box; Region: sensory_box; TIGR00229 207559001832 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559001833 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559001834 Walker A motif; other site 207559001835 ATP binding site [chemical binding]; other site 207559001836 Walker B motif; other site 207559001837 arginine finger; other site 207559001838 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559001839 maltose O-acetyltransferase; Provisional; Region: PRK10092 207559001840 Maltose acetyltransferase; Region: Mac; pfam12464 207559001841 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 207559001842 trimer interface [polypeptide binding]; other site 207559001843 active site 207559001844 substrate binding site [chemical binding]; other site 207559001845 CoA binding site [chemical binding]; other site 207559001846 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001847 putative catalytic site [active] 207559001848 putative phosphate binding site [ion binding]; other site 207559001849 putative metal binding site [ion binding]; other site 207559001850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559001851 putative substrate translocation pore; other site 207559001852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559001853 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559001854 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001855 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 207559001856 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 207559001857 Walker A/P-loop; other site 207559001858 ATP binding site [chemical binding]; other site 207559001859 Q-loop/lid; other site 207559001860 ABC transporter signature motif; other site 207559001861 Walker B; other site 207559001862 D-loop; other site 207559001863 H-loop/switch region; other site 207559001864 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 207559001865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559001866 dimer interface [polypeptide binding]; other site 207559001867 conserved gate region; other site 207559001868 putative PBP binding loops; other site 207559001869 ABC-ATPase subunit interface; other site 207559001870 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559001871 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 207559001872 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 207559001873 putative homotetramer interface [polypeptide binding]; other site 207559001874 putative homodimer interface [polypeptide binding]; other site 207559001875 putative allosteric switch controlling residues; other site 207559001876 putative metal binding site [ion binding]; other site 207559001877 putative homodimer-homodimer interface [polypeptide binding]; other site 207559001878 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 207559001879 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559001880 active site residue [active] 207559001881 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559001882 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559001883 active site residue [active] 207559001884 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559001885 active site residue [active] 207559001886 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559001887 active site residue [active] 207559001888 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 207559001889 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559001890 4Fe-4S binding domain; Region: Fer4; cl02805 207559001891 thiosulfate reductase PhsA; Provisional; Region: PRK15488 207559001892 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 207559001893 putative [Fe4-S4] binding site [ion binding]; other site 207559001894 putative molybdopterin cofactor binding site [chemical binding]; other site 207559001895 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound...; Region: MopB_CT_Thiosulfate-R-like; cd02778 207559001896 putative molybdopterin cofactor binding site; other site 207559001897 Cytochrome c; Region: Cytochrom_C; cl11414 207559001898 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 207559001899 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 207559001900 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 207559001901 putative MPT binding site; other site 207559001902 Integral membrane protein TerC family; Region: TerC; cl10468 207559001903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001904 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001905 active site 207559001906 phosphorylation site [posttranslational modification] 207559001907 intermolecular recognition site; other site 207559001908 dimerization interface [polypeptide binding]; other site 207559001909 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559001910 transmembrane helices; other site 207559001911 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559001912 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 207559001913 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001915 active site 207559001916 phosphorylation site [posttranslational modification] 207559001917 intermolecular recognition site; other site 207559001918 dimerization interface [polypeptide binding]; other site 207559001919 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001921 active site 207559001922 phosphorylation site [posttranslational modification] 207559001923 intermolecular recognition site; other site 207559001924 dimerization interface [polypeptide binding]; other site 207559001925 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 207559001926 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001927 ATP binding site [chemical binding]; other site 207559001928 Mg2+ binding site [ion binding]; other site 207559001929 G-X-G motif; other site 207559001930 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559001931 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559001932 Walker A motif; other site 207559001933 ATP binding site [chemical binding]; other site 207559001934 Walker B motif; other site 207559001935 arginine finger; other site 207559001936 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559001937 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 207559001938 ABC-2 type transporter; Region: ABC2_membrane; cl11417 207559001939 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 207559001940 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 207559001941 Walker A/P-loop; other site 207559001942 ATP binding site [chemical binding]; other site 207559001943 Q-loop/lid; other site 207559001944 ABC transporter signature motif; other site 207559001945 Walker B; other site 207559001946 D-loop; other site 207559001947 H-loop/switch region; other site 207559001948 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 207559001949 Permease family; Region: Xan_ur_permease; pfam00860 207559001950 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559001951 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 207559001952 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 207559001953 active site 207559001954 putative substrate binding pocket [chemical binding]; other site 207559001955 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559001956 PAS fold; Region: PAS_4; pfam08448 207559001957 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559001958 putative active site [active] 207559001959 heme pocket [chemical binding]; other site 207559001960 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001961 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559001962 SelR domain; Region: SelR; cl00369 207559001963 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 207559001964 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 207559001965 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 207559001966 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559001967 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 207559001968 GTP binding site [chemical binding]; other site 207559001969 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 207559001970 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559001971 FeS/SAM binding site; other site 207559001972 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 207559001973 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559001975 active site 207559001976 phosphorylation site [posttranslational modification] 207559001977 intermolecular recognition site; other site 207559001978 dimerization interface [polypeptide binding]; other site 207559001979 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 207559001980 anti sigma factor interaction site; other site 207559001981 regulatory phosphorylation site [posttranslational modification]; other site 207559001982 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559001983 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559001984 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559001985 dimer interface [polypeptide binding]; other site 207559001986 phosphorylation site [posttranslational modification] 207559001987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001988 ATP binding site [chemical binding]; other site 207559001989 Mg2+ binding site [ion binding]; other site 207559001990 G-X-G motif; other site 207559001991 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559001992 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 207559001993 putative ligand binding site [chemical binding]; other site 207559001994 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 207559001995 catalytic residues [active] 207559001996 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 207559001997 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 207559001998 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559001999 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559002000 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 207559002001 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 207559002002 molybdopterin cofactor binding site; other site 207559002003 Fe-S containing; Region: FDH-beta; TIGR01582 207559002004 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 207559002005 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559002006 Putative Fe-S cluster; Region: FeS; pfam04060 207559002007 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 207559002008 anti sigma factor interaction site; other site 207559002009 regulatory phosphorylation site [posttranslational modification]; other site 207559002010 Cache domain; Region: Cache_1; pfam02743 207559002011 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559002012 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 207559002013 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 207559002014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 207559002015 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559002016 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 207559002017 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13642 207559002018 Walker A/P-loop; other site 207559002019 ATP binding site [chemical binding]; other site 207559002020 Q-loop/lid; other site 207559002021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559002022 ABC transporter signature motif; other site 207559002023 Walker B; other site 207559002024 D-loop; other site 207559002025 H-loop/switch region; other site 207559002026 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 207559002027 ligand binding site [chemical binding]; other site 207559002028 flexible hinge region; other site 207559002029 ferredoxin; Validated; Region: PRK07118 207559002030 4Fe-4S binding domain; Region: Fer4; cl02805 207559002031 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 207559002032 4Fe-4S binding domain; Region: Fer4; cl02805 207559002033 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559002034 putative cation:proton antiport protein; Provisional; Region: PRK10669 207559002035 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 207559002036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002037 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559002038 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain...; Region: PA; cl08238 207559002039 M28, and M42; Region: Zinc_peptidase_like; cl14876 207559002040 metal binding site [ion binding]; metal-binding site 207559002041 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 207559002042 FtsX-like permease family; Region: FtsX; pfam02687 207559002043 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 207559002044 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559002045 Walker A/P-loop; other site 207559002046 ATP binding site [chemical binding]; other site 207559002047 Q-loop/lid; other site 207559002048 ABC transporter signature motif; other site 207559002049 Walker B; other site 207559002050 D-loop; other site 207559002051 H-loop/switch region; other site 207559002052 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 207559002053 FtsX-like permease family; Region: FtsX; pfam02687 207559002054 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 207559002055 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 207559002056 catalytic core [active] 207559002057 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559002058 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 207559002059 putative ADP-binding pocket [chemical binding]; other site 207559002060 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 207559002061 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559002062 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559002063 FeS/SAM binding site; other site 207559002064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559002065 Integrase core domain; Region: rve; cl01316 207559002066 PAS fold; Region: PAS_4; pfam08448 207559002067 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 207559002068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559002069 Integrase core domain; Region: rve; cl01316 207559002070 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 207559002071 Histidine kinase; Region: HisKA_3; pfam07730 207559002072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002073 ATP binding site [chemical binding]; other site 207559002074 Mg2+ binding site [ion binding]; other site 207559002075 G-X-G motif; other site 207559002076 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 207559002077 dimerization interface [polypeptide binding]; other site 207559002078 putative DNA binding site [nucleotide binding]; other site 207559002079 putative Zn2+ binding site [ion binding]; other site 207559002080 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 207559002081 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559002082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559002083 DNA-binding site [nucleotide binding]; DNA binding site 207559002084 FCD domain; Region: FCD; cl11656 207559002085 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 207559002086 active site 207559002087 substrate binding site [chemical binding]; other site 207559002088 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 207559002089 FMN binding site [chemical binding]; other site 207559002090 putative catalytic residues [active] 207559002091 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 207559002092 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559002093 metal binding site 2 [ion binding]; metal-binding site 207559002094 putative DNA binding helix; other site 207559002095 metal binding site 1 [ion binding]; metal-binding site 207559002096 dimer interface [polypeptide binding]; other site 207559002097 structural Zn2+ binding site [ion binding]; other site 207559002098 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 207559002099 Transposase domain (DUF772); Region: DUF772; cl12084 207559002100 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559002101 putative diguanylate cyclase; Provisional; Region: PRK09776 207559002102 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559002103 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559002104 dimer interface [polypeptide binding]; other site 207559002105 phosphorylation site [posttranslational modification] 207559002106 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002107 ATP binding site [chemical binding]; other site 207559002108 Mg2+ binding site [ion binding]; other site 207559002109 G-X-G motif; other site 207559002110 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002111 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 207559002112 nuc_hydro_CjNH. Nucleoside hydrolases similar to Campylobacter jejuni nucleoside hydrolase. This group contains eukaryotic and bacterial proteins similar to C. jejuni nucleoside hydrolase. Nucleoside hydrolases cleave the N-glycosidic bond in...; Region: nuc_hydro_CjNH; cd02654 207559002113 active site 207559002114 DsrC like protein; Region: DsrC; cl01101 207559002115 FOG: CBS domain [General function prediction only]; Region: COG0517 207559002116 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 207559002117 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 207559002118 Uncharacterized conserved protein [Function unknown]; Region: COG1641; cl03398 207559002119 Protein of unknown function DUF111; Region: DUF111; pfam01969 207559002120 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 207559002121 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559002122 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 207559002123 Tim44-like domain; Region: Tim44; cl09208 207559002124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559002125 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002126 active site 207559002127 phosphorylation site [posttranslational modification] 207559002128 intermolecular recognition site; other site 207559002129 dimerization interface [polypeptide binding]; other site 207559002130 Cytochrome P450; Region: p450; cl12078 207559002131 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 207559002132 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559002133 ATP binding site [chemical binding]; other site 207559002134 putative Mg++ binding site [ion binding]; other site 207559002135 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559002136 nucleotide binding region [chemical binding]; other site 207559002137 ATP-binding site [chemical binding]; other site 207559002138 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 207559002139 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559002140 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559002141 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559002142 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559002143 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559002144 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 207559002145 putative FMN binding site [chemical binding]; other site 207559002146 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 207559002147 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002148 TPR motif; other site 207559002149 binding surface 207559002150 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002151 binding surface 207559002152 TPR motif; other site 207559002153 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 207559002154 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 207559002155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559002156 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 207559002157 RNA/DNA binding site [nucleotide binding]; other site 207559002158 RRM dimerization site [polypeptide binding]; other site 207559002159 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002160 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 207559002161 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 207559002162 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559002163 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 207559002164 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559002165 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002166 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002167 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 207559002168 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559002169 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559002170 substrate binding pocket [chemical binding]; other site 207559002171 membrane-bound complex binding site; other site 207559002172 hinge residues; other site 207559002173 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 207559002174 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 207559002175 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559002176 CbiD; Region: CbiD; cl00828 207559002177 Methylamine utilisation protein MauE; Region: MauE; pfam07291 207559002178 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559002179 active site residue [active] 207559002180 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 207559002181 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559002182 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559002183 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 207559002184 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 207559002185 homotrimer interaction site [polypeptide binding]; other site 207559002186 putative active site [active] 207559002187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 207559002188 YheO-like PAS domain; Region: PAS_6; pfam08348 207559002189 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 207559002190 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559002191 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 207559002192 active site 207559002193 Fe-S containing; Region: FDH-beta; TIGR01582 207559002194 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 207559002195 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 207559002196 [4Fe-4S] binding site [ion binding]; other site 207559002197 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559002198 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 207559002199 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 207559002200 molybdopterin cofactor binding site; other site 207559002201 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002202 metal binding site [ion binding]; metal-binding site 207559002203 active site 207559002204 I-site; other site 207559002205 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cd02205 207559002206 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 207559002207 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002208 metal binding site [ion binding]; metal-binding site 207559002209 active site 207559002210 I-site; other site 207559002211 PilZ domain; Region: PilZ; cl01260 207559002212 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 207559002213 active site 207559002214 nucleophile elbow; other site 207559002215 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 207559002216 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 207559002218 active site 207559002219 phosphorylation site [posttranslational modification] 207559002220 intermolecular recognition site; other site 207559002221 dimerization interface [polypeptide binding]; other site 207559002222 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559002223 Walker A motif; other site 207559002224 ATP binding site [chemical binding]; other site 207559002225 Walker B motif; other site 207559002226 arginine finger; other site 207559002227 PilZ domain; Region: PilZ; cl01260 207559002228 hypothetical protein; Provisional; Region: PRK14852 207559002229 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 207559002230 ATP binding site [chemical binding]; other site 207559002231 substrate interface [chemical binding]; other site 207559002232 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 207559002233 FMN binding site [chemical binding]; other site 207559002234 dimer interface [polypeptide binding]; other site 207559002235 PEP-CTERM motif; Region: VPEP; pfam07589 207559002236 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 207559002237 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 207559002238 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559002239 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559002240 Walker A/P-loop; other site 207559002241 ATP binding site [chemical binding]; other site 207559002242 Q-loop/lid; other site 207559002243 ABC transporter signature motif; other site 207559002244 Walker B; other site 207559002245 D-loop; other site 207559002246 H-loop/switch region; other site 207559002247 DevC protein; Region: devC; TIGR01185 207559002248 FtsX-like permease family; Region: FtsX; pfam02687 207559002249 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 207559002250 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002251 binding surface 207559002252 TPR motif; other site 207559002253 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002254 binding surface 207559002255 TPR motif; other site 207559002256 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002257 binding surface 207559002258 TPR motif; other site 207559002259 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002260 binding surface 207559002261 TPR motif; other site 207559002262 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002263 binding surface 207559002264 TPR motif; other site 207559002265 Bacterial sugar transferase; Region: Bac_transf; cl00939 207559002266 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 207559002267 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 207559002268 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 207559002269 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 207559002270 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 207559002271 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559002272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559002273 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 207559002274 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 207559002275 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 207559002276 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 207559002277 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559002278 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 207559002279 DXD motif; other site 207559002280 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559002281 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002282 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 207559002283 putative ADP-binding pocket [chemical binding]; other site 207559002284 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 207559002285 Ligand binding site [chemical binding]; other site 207559002286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002287 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 207559002288 putative ADP-binding pocket [chemical binding]; other site 207559002289 TIGR03790 family protein; Region: TIGR03790 207559002290 ABC-2 type transporter; Region: ABC2_membrane; cl11417 207559002291 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 207559002292 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 207559002293 Ligand Binding Site [chemical binding]; other site 207559002294 Molecular Tunnel; other site 207559002295 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559002296 active site 207559002297 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559002298 active site 207559002299 O-Antigen ligase; Region: Wzy_C; cl04850 207559002300 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559002301 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002302 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 207559002303 eight transmembrane protein EpsH (proposed exosortase); Region: 8TM_EpsH; cl10495 207559002304 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 207559002305 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 207559002306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002307 ATP binding site [chemical binding]; other site 207559002308 Mg2+ binding site [ion binding]; other site 207559002309 G-X-G motif; other site 207559002310 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 207559002311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559002312 active site 207559002313 phosphorylation site [posttranslational modification] 207559002314 intermolecular recognition site; other site 207559002315 dimerization interface [polypeptide binding]; other site 207559002316 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559002317 Walker A motif; other site 207559002318 ATP binding site [chemical binding]; other site 207559002319 Walker B motif; other site 207559002320 arginine finger; other site 207559002321 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559002322 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 207559002323 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 207559002324 Walker A/P-loop; other site 207559002325 ATP binding site [chemical binding]; other site 207559002326 Q-loop/lid; other site 207559002327 ABC transporter signature motif; other site 207559002328 Walker B; other site 207559002329 D-loop; other site 207559002330 H-loop/switch region; other site 207559002331 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 207559002332 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 207559002333 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 207559002334 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 207559002335 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 207559002336 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 207559002337 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 207559002338 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 207559002339 helicase Cas3; Provisional; Region: PRK09694 207559002340 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 207559002341 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559002342 PAS domain S-box; Region: sensory_box; TIGR00229 207559002343 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559002344 putative active site [active] 207559002345 heme pocket [chemical binding]; other site 207559002346 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002347 metal binding site [ion binding]; metal-binding site 207559002348 active site 207559002349 I-site; other site 207559002350 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 207559002351 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 207559002352 putative transposase OrfB; Reviewed; Region: PHA02517 207559002353 Integrase core domain; Region: rve; cl01316 207559002354 TOBE domain; Region: TOBE_2; cl01440 207559002355 TOBE domain; Region: TOBE_2; cl01440 207559002356 MBOAT family; Region: MBOAT; cl00738 207559002357 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 207559002358 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559002359 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559002360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559002361 dimer interface [polypeptide binding]; other site 207559002362 phosphorylation site [posttranslational modification] 207559002363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002364 ATP binding site [chemical binding]; other site 207559002365 Mg2+ binding site [ion binding]; other site 207559002366 G-X-G motif; other site 207559002367 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559002369 active site 207559002370 phosphorylation site [posttranslational modification] 207559002371 intermolecular recognition site; other site 207559002372 dimerization interface [polypeptide binding]; other site 207559002373 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559002374 Walker A motif; other site 207559002375 ATP binding site [chemical binding]; other site 207559002376 Walker B motif; other site 207559002377 arginine finger; other site 207559002378 Membrane transport protein; Region: Mem_trans; cl09117 207559002379 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 207559002380 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 207559002381 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 207559002382 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 207559002383 Predicted transcriptional regulator [Transcription]; Region: COG1497 207559002384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002385 metal binding site [ion binding]; metal-binding site 207559002386 active site 207559002387 I-site; other site 207559002388 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 207559002389 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559002390 LexA repressor; Validated; Region: PRK00215 207559002391 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 207559002392 Catalytic site [active] 207559002393 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 207559002394 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559002395 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559002396 catalytic residues [active] 207559002397 catalytic nucleophile [active] 207559002398 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559002399 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559002400 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559002401 Synaptic Site I dimer interface [polypeptide binding]; other site 207559002402 DNA binding site [nucleotide binding] 207559002403 Recombinase; Region: Recombinase; pfam07508 207559002404 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 207559002405 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559002406 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559002407 Protein of unknown function (DUF669); Region: DUF669; pfam05037 207559002408 ERCC4 domain; Region: ERCC4; pfam02732 207559002409 RecD/TraA family; Region: recD_rel; TIGR01448 207559002410 DNA primase, catalytic core; Region: dnaG; TIGR01391 207559002411 CHC2 zinc finger; Region: zf-CHC2; cl02597 207559002412 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559002413 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication...; Region: TOPRIM_primases; cd01029 207559002414 active site 207559002415 metal binding site [ion binding]; metal-binding site 207559002416 interdomain interaction site; other site 207559002417 Fic/DOC family; Region: Fic; cl00960 207559002418 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559002419 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 207559002420 DNA binding site [nucleotide binding] 207559002421 Int/Topo IB signature motif; other site 207559002422 active site 207559002423 Terminase-like family; Region: Terminase_6; pfam03237 207559002424 Phage portal protein; Region: Phage_portal; pfam04860 207559002425 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559002426 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 207559002427 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 207559002428 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 207559002429 chromosome segregation protein; Provisional; Region: PRK02224 207559002430 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 207559002431 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 207559002432 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 207559002433 Phage-related protein [Function unknown]; Region: COG5412 207559002434 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 207559002435 Phage protein D [General function prediction only]; Region: COG3500; cl12180 207559002436 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 207559002437 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559002438 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 207559002439 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 207559002440 Uncharacterized conserved protein [Function unknown]; Region: COG4104 207559002441 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl01910 207559002442 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 207559002443 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559002444 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559002445 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 207559002446 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559002447 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 207559002448 active site 207559002449 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 207559002450 putative active site pocket [active] 207559002451 dimerization interface [polypeptide binding]; other site 207559002452 putative catalytic residue [active] 207559002453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559002454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559002455 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 207559002456 Outer membrane efflux protein; Region: OEP; pfam02321 207559002457 Outer membrane efflux protein; Region: OEP; pfam02321 207559002458 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559002459 hypothetical protein; Provisional; Region: PRK10279 207559002460 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 207559002461 active site 207559002462 nucleophile elbow; other site 207559002463 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559002464 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 207559002465 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559002466 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559002467 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 207559002468 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559002469 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; cl12083 207559002470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 207559002471 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; cl12083 207559002472 Fic family protein [Function unknown]; Region: COG3177 207559002473 Fic/DOC family; Region: Fic; cl00960 207559002474 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 207559002475 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559002476 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 207559002477 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559002478 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559002479 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 207559002480 active site 207559002481 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559002482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559002483 active site 207559002484 phosphorylation site [posttranslational modification] 207559002485 intermolecular recognition site; other site 207559002486 dimerization interface [polypeptide binding]; other site 207559002487 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 207559002488 DNA binding residues [nucleotide binding] 207559002489 phosphodiesterase; Provisional; Region: PRK12704 207559002490 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559002491 Cell division protein ZapA; Region: ZapA; cl01146 207559002492 Protein of unknown function (DUF904); Region: DUF904; cl11531 207559002493 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 207559002494 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 207559002495 Substrate binding site [chemical binding]; other site 207559002496 Mg++ binding site [ion binding]; other site 207559002497 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 207559002498 active site 207559002499 substrate binding site [chemical binding]; other site 207559002500 CoA binding site [chemical binding]; other site 207559002501 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 207559002502 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 207559002503 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 207559002504 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 207559002505 alpha subunit interaction interface [polypeptide binding]; other site 207559002506 Walker A motif; other site 207559002507 ATP binding site [chemical binding]; other site 207559002508 Walker B motif; other site 207559002509 inhibitor binding site; inhibition site 207559002510 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 207559002511 ATP synthase; Region: ATP-synt; cl00365 207559002512 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 207559002513 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 207559002514 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 207559002515 beta subunit interaction interface [polypeptide binding]; other site 207559002516 Walker A motif; other site 207559002517 ATP binding site [chemical binding]; other site 207559002518 Walker B motif; other site 207559002519 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 207559002520 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 207559002521 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 207559002522 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 207559002523 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 207559002524 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 207559002525 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 207559002526 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 207559002527 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 207559002528 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 207559002529 rod shape-determining protein MreC; Provisional; Region: PRK13922 207559002530 rod shape-determining protein MreC; Region: MreC; pfam04085 207559002531 rod shape-determining protein MreB; Provisional; Region: PRK13927 207559002532 Cell division protein FtsA; Region: FtsA; cl11496 207559002533 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 207559002534 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559002535 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 207559002536 DNA binding site [nucleotide binding] 207559002537 active site 207559002538 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 207559002539 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 207559002540 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 207559002541 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 207559002542 SelR domain; Region: SelR; cl00369 207559002543 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 207559002544 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 207559002545 NAD binding site [chemical binding]; other site 207559002546 homotetramer interface [polypeptide binding]; other site 207559002547 homodimer interface [polypeptide binding]; other site 207559002548 substrate binding site [chemical binding]; other site 207559002549 active site 207559002550 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 207559002551 ATP binding site [chemical binding]; other site 207559002552 active site 207559002553 substrate binding site [chemical binding]; other site 207559002554 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 207559002555 E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 207559002556 NAD binding site [chemical binding]; other site 207559002557 dimerization interface [polypeptide binding]; other site 207559002558 product binding site; other site 207559002559 substrate binding site [chemical binding]; other site 207559002560 zinc binding site [ion binding]; other site 207559002561 catalytic residues [active] 207559002562 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 207559002563 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 207559002564 UvrB/uvrC motif; Region: UVR; pfam02151 207559002565 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 207559002566 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 207559002567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559002568 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002569 ATP binding site [chemical binding]; other site 207559002570 Mg2+ binding site [ion binding]; other site 207559002571 G-X-G motif; other site 207559002572 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559002574 active site 207559002575 phosphorylation site [posttranslational modification] 207559002576 intermolecular recognition site; other site 207559002577 dimerization interface [polypeptide binding]; other site 207559002578 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559002579 Walker A motif; other site 207559002580 ATP binding site [chemical binding]; other site 207559002581 Walker B motif; other site 207559002582 arginine finger; other site 207559002583 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559002585 active site 207559002586 phosphorylation site [posttranslational modification] 207559002587 intermolecular recognition site; other site 207559002588 dimerization interface [polypeptide binding]; other site 207559002589 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 207559002590 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs...; Region: tRNA_Me_trans; cd01998 207559002591 Ligand Binding Site [chemical binding]; other site 207559002592 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 207559002593 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 207559002594 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 207559002595 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559002596 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559002597 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 207559002598 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding...; Region: GrpE; cd00446 207559002599 dimer interface [polypeptide binding]; other site 207559002600 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 207559002601 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 207559002602 HrcA protein C terminal domain; Region: HrcA; pfam01628 207559002603 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 207559002604 catalytic triad [active] 207559002605 AsmA family; Region: AsmA; pfam05170 207559002606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 207559002607 PilZ domain; Region: PilZ; cl01260 207559002608 cobyric acid synthase; Provisional; Region: PRK00784 207559002609 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559002610 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 207559002611 catalytic triad [active] 207559002612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559002613 pyruvate kinase; Provisional; Region: PRK05826 207559002614 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 207559002615 domain interfaces; other site 207559002616 active site 207559002617 cell division protein MraZ; Reviewed; Region: PRK00326 207559002618 MraZ protein; Region: MraZ; pfam02381 207559002619 MraZ protein; Region: MraZ; pfam02381 207559002620 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559002621 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 207559002622 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 207559002623 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 207559002624 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 207559002625 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 207559002626 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002627 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002628 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002629 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002630 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 207559002631 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002632 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 207559002633 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 207559002634 Mg++ binding site [ion binding]; other site 207559002635 putative catalytic motif [active] 207559002636 putative substrate binding site [chemical binding]; other site 207559002637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002638 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 207559002639 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002640 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002641 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 207559002642 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 207559002643 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl...; Region: GT1_MurG; cd03785 207559002644 active site 207559002645 homodimer interface [polypeptide binding]; other site 207559002646 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 207559002647 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002648 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002649 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002650 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 207559002651 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 207559002652 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 207559002653 Cell division protein FtsQ; Region: FtsQ; pfam03799 207559002654 cell division protein FtsA; Region: ftsA; TIGR01174 207559002655 Cell division protein FtsA; Region: FtsA; cl11496 207559002656 Cell division protein FtsA; Region: FtsA; cl11496 207559002657 cell division protein FtsZ; Region: ftsZ; TIGR00065 207559002658 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 207559002659 nucleotide binding site [chemical binding]; other site 207559002660 SulA interaction site; other site 207559002661 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 207559002662 CoenzymeA binding site [chemical binding]; other site 207559002663 subunit interaction site [polypeptide binding]; other site 207559002664 PHB binding site; other site 207559002665 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 207559002666 Peptidase family M48; Region: Peptidase_M48; cl12018 207559002667 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 207559002668 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559002669 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 207559002670 active site 207559002671 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559002672 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 207559002673 Walker A/P-loop; other site 207559002674 ATP binding site [chemical binding]; other site 207559002675 Q-loop/lid; other site 207559002676 ABC transporter signature motif; other site 207559002677 Walker B; other site 207559002678 D-loop; other site 207559002679 H-loop/switch region; other site 207559002680 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559002681 Walker A/P-loop; other site 207559002682 ATP binding site [chemical binding]; other site 207559002683 Q-loop/lid; other site 207559002684 ABC transporter signature motif; other site 207559002685 Walker B; other site 207559002686 D-loop; other site 207559002687 H-loop/switch region; other site 207559002688 histidinol-phosphatase; Provisional; Region: PRK07328 207559002689 Late competence development protein ComFB; Region: ComFB; pfam10719 207559002690 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 207559002691 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 207559002692 putative active site [active] 207559002693 PhoH-like protein; Region: PhoH; cl12134 207559002694 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 207559002695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559002696 dimer interface [polypeptide binding]; other site 207559002697 conserved gate region; other site 207559002698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 207559002699 ABC-ATPase subunit interface; other site 207559002700 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 207559002701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559002702 dimer interface [polypeptide binding]; other site 207559002703 conserved gate region; other site 207559002704 putative PBP binding loops; other site 207559002705 ABC-ATPase subunit interface; other site 207559002706 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002707 hypothetical protein; Provisional; Region: PHA02515 207559002708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002709 metal binding site [ion binding]; metal-binding site 207559002710 active site 207559002711 I-site; other site 207559002712 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 207559002713 active site 207559002714 intersubunit interactions; other site 207559002715 catalytic residue [active] 207559002716 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559002717 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559002718 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559002719 putative active site [active] 207559002720 heme pocket [chemical binding]; other site 207559002721 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559002722 dimer interface [polypeptide binding]; other site 207559002723 phosphorylation site [posttranslational modification] 207559002724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002725 ATP binding site [chemical binding]; other site 207559002726 Mg2+ binding site [ion binding]; other site 207559002727 G-X-G motif; other site 207559002728 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559002729 glycolate transporter; Provisional; Region: PRK09695 207559002730 L-lactate permease; Region: Lactate_perm; cl00701 207559002731 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559002732 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559002733 thiosulfate reductase PhsA; Provisional; Region: PRK15488 207559002734 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 207559002735 putative [Fe4-S4] binding site [ion binding]; other site 207559002736 putative molybdopterin cofactor binding site [chemical binding]; other site 207559002737 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound...; Region: MopB_CT_Thiosulfate-R-like; cd02778 207559002738 putative molybdopterin cofactor binding site; other site 207559002739 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559002740 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559002741 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 207559002742 putative CheA interaction surface; other site 207559002743 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 207559002744 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559002745 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group...; Region: OAT; cd02152 207559002746 heterotetramer interface [polypeptide binding]; other site 207559002747 active site pocket [active] 207559002748 cleavage site 207559002749 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 207559002750 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559002751 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 207559002752 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559002753 nucleotide binding region [chemical binding]; other site 207559002754 ATP-binding site [chemical binding]; other site 207559002755 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559002756 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559002757 Family of unknown function (DUF500); Region: DUF500; cl01109 207559002758 FAD binding domain; Region: FAD_binding_4; pfam01565 207559002759 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559002760 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 207559002761 SmpB-tmRNA interface; other site 207559002762 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 207559002763 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 207559002764 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559002765 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 207559002766 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 207559002767 dimerization domain swap beta strand [polypeptide binding]; other site 207559002768 regulatory protein interface [polypeptide binding]; other site 207559002769 active site 207559002770 regulatory phosphorylation site [posttranslational modification]; other site 207559002771 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 207559002772 Predicted methyltransferases [General function prediction only]; Region: COG0313 207559002773 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 207559002774 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 207559002775 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 207559002776 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 207559002777 RNA/DNA hybrid binding site [nucleotide binding]; other site 207559002778 active site 207559002779 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 207559002780 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 207559002781 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559002782 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 207559002783 RimM N-terminal domain; Region: RimM; pfam01782 207559002784 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 207559002785 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 207559002786 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 207559002787 signal recognition particle protein; Provisional; Region: PRK10867 207559002788 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 207559002789 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 207559002790 P loop; other site 207559002791 GTP binding site [chemical binding]; other site 207559002792 Signal peptide binding domain; Region: SRP_SPB; pfam02978 207559002793 high affinity sulphate transporter 1; Region: sulP; TIGR00815 207559002794 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559002795 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 207559002796 aspartate aminotransferase; Provisional; Region: PRK06836 207559002797 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559002798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559002799 homodimer interface [polypeptide binding]; other site 207559002800 catalytic residue [active] 207559002801 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 207559002802 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 207559002803 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 207559002804 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 207559002805 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 207559002806 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559002808 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002809 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559002810 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002811 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 207559002812 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559002813 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559002814 tricarballylate utilization protein B; Provisional; Region: PRK15033 207559002815 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559002816 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 207559002817 Yip1 domain; Region: Yip1; cl12048 207559002818 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559002819 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002820 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559002821 Flagellar protein FliS; Region: FliS; cl00654 207559002822 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 207559002823 flagellar capping protein; Provisional; Region: PRK12765 207559002824 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 207559002825 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 207559002826 RIP metalloprotease RseP; Region: TIGR00054 207559002827 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 207559002828 active site 207559002829 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 207559002830 protein binding site [polypeptide binding]; other site 207559002831 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 207559002832 putative substrate binding region [chemical binding]; other site 207559002833 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 207559002834 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 207559002835 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 207559002836 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 207559002837 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559002838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559002839 catalytic residue [active] 207559002840 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 207559002841 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 207559002842 catalytic residue [active] 207559002843 putative FPP diphosphate binding site; other site 207559002844 putative FPP binding hydrophobic cleft; other site 207559002845 dimer interface [polypeptide binding]; other site 207559002846 putative IPP diphosphate binding site; other site 207559002847 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 207559002848 hinge region; other site 207559002849 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 207559002850 putative nucleotide binding site [chemical binding]; other site 207559002851 uridine monophosphate binding site [chemical binding]; other site 207559002852 homohexameric interface [polypeptide binding]; other site 207559002853 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 207559002854 putative metal binding site [ion binding]; other site 207559002855 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 207559002856 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 207559002857 inhibitor-cofactor binding pocket; inhibition site 207559002858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559002859 catalytic residue [active] 207559002860 elongation factor Ts; Reviewed; Region: tsf; PRK12332 207559002861 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 207559002862 Elongation factor TS; Region: EF_TS; pfam00889 207559002863 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 207559002864 rRNA interaction site [nucleotide binding]; other site 207559002865 S8 interaction site; other site 207559002866 putative laminin-1 binding site; other site 207559002867 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 207559002868 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 207559002869 Ligand Binding Site [chemical binding]; other site 207559002870 Molecular Tunnel; other site 207559002871 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 207559002872 putative acyl-acceptor binding pocket; other site 207559002873 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 207559002874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559002875 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 207559002876 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 207559002877 MgtC family; Region: MgtC; cl12207 207559002878 EamA-like transporter family; Region: EamA; cl01037 207559002879 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559002880 EamA-like transporter family; Region: EamA; cl01037 207559002881 heat shock protein 90; Provisional; Region: PRK05218 207559002882 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 207559002883 iron-only hydrogenase maturation rSAM protein HydG; Region: rSAM_HydG; TIGR03955 207559002884 TSCPD domain; Region: TSCPD; cl14834 207559002885 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 207559002886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559002887 Zn2+ binding site [ion binding]; other site 207559002888 Mg2+ binding site [ion binding]; other site 207559002889 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 207559002890 Catalytic site [active] 207559002891 cystine transporter subunit; Provisional; Region: PRK11260 207559002892 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559002893 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 207559002894 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559002895 putative active site [active] 207559002896 metal binding site [ion binding]; metal-binding site 207559002897 PAS fold; Region: PAS_4; pfam08448 207559002898 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559002899 putative active site [active] 207559002900 heme pocket [chemical binding]; other site 207559002901 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559002902 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559002903 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559002904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002905 ATP binding site [chemical binding]; other site 207559002906 Mg2+ binding site [ion binding]; other site 207559002907 G-X-G motif; other site 207559002908 PAS domain S-box; Region: sensory_box; TIGR00229 207559002909 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559002910 PAS fold; Region: PAS_4; pfam08448 207559002911 PAS fold; Region: PAS_4; pfam08448 207559002912 PAS domain S-box; Region: sensory_box; TIGR00229 207559002913 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559002914 putative active site [active] 207559002915 heme pocket [chemical binding]; other site 207559002916 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002917 metal binding site [ion binding]; metal-binding site 207559002918 active site 207559002919 I-site; other site 207559002920 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559002921 binding surface 207559002922 TPR motif; other site 207559002923 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 207559002924 conserved cys residue [active] 207559002925 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559002926 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 207559002927 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002928 putative diguanylate cyclase; Provisional; Region: PRK09776 207559002929 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002930 metal binding site [ion binding]; metal-binding site 207559002931 active site 207559002932 I-site; other site 207559002933 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 207559002934 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559002935 ATP binding site [chemical binding]; other site 207559002936 putative Mg++ binding site [ion binding]; other site 207559002937 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559002938 Helicase associated domain (HA2); Region: HA2; cl04503 207559002939 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 207559002940 META domain; Region: META; cl01245 207559002941 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 207559002942 Malate synthase [Energy production and conversion]; Region: AceB; COG2225 207559002943 active site 207559002944 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 207559002945 RNA/DNA binding site [nucleotide binding]; other site 207559002946 RRM dimerization site [polypeptide binding]; other site 207559002947 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism...; Region: L-Ala-DL-Glu_epimerase; cd03319 207559002948 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 207559002949 active site 207559002950 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 207559002951 Dak1 domain; Region: Dak1; pfam02733 207559002952 DAK2 domain; Region: Dak2; cl03685 207559002953 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 207559002954 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cl00025 207559002955 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 207559002956 dimerization domain swap beta strand [polypeptide binding]; other site 207559002957 regulatory protein interface [polypeptide binding]; other site 207559002958 active site 207559002959 regulatory phosphorylation site [posttranslational modification]; other site 207559002960 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 207559002961 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 207559002962 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559002963 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 207559002964 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559002965 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559002966 Walker A/P-loop; other site 207559002967 ATP binding site [chemical binding]; other site 207559002968 Q-loop/lid; other site 207559002969 ABC transporter signature motif; other site 207559002970 Walker B; other site 207559002971 D-loop; other site 207559002972 H-loop/switch region; other site 207559002973 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559002974 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559002975 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559002976 Walker A/P-loop; other site 207559002977 ATP binding site [chemical binding]; other site 207559002978 Q-loop/lid; other site 207559002979 ABC transporter signature motif; other site 207559002980 Walker B; other site 207559002981 D-loop; other site 207559002982 H-loop/switch region; other site 207559002983 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559002984 dipeptide transporter; Provisional; Region: PRK10913 207559002985 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 207559002986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559002987 dimer interface [polypeptide binding]; other site 207559002988 conserved gate region; other site 207559002989 putative PBP binding loops; other site 207559002990 ABC-ATPase subunit interface; other site 207559002991 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559002992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559002993 dimer interface [polypeptide binding]; other site 207559002994 conserved gate region; other site 207559002995 putative PBP binding loops; other site 207559002996 ABC-ATPase subunit interface; other site 207559002997 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559002998 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 207559002999 peptide binding site [polypeptide binding]; other site 207559003000 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 207559003001 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 207559003002 metal binding site [ion binding]; metal-binding site 207559003003 dimer interface [polypeptide binding]; other site 207559003004 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 207559003005 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559003006 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559003007 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 207559003008 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 207559003009 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 207559003010 Cobalt transport protein; Region: CbiQ; cl00463 207559003011 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559003012 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 207559003013 Walker A/P-loop; other site 207559003014 ATP binding site [chemical binding]; other site 207559003015 Q-loop/lid; other site 207559003016 ABC transporter signature motif; other site 207559003017 Walker B; other site 207559003018 D-loop; other site 207559003019 H-loop/switch region; other site 207559003020 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559003021 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559003022 substrate binding pocket [chemical binding]; other site 207559003023 membrane-bound complex binding site; other site 207559003024 hinge residues; other site 207559003025 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559003026 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559003027 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer...; Region: NADH_nitroreductase; cd02143 207559003028 putative FMN binding site [chemical binding]; other site 207559003029 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 207559003030 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559003031 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559003032 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559003033 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559003034 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 207559003035 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559003036 ligand binding site [chemical binding]; other site 207559003037 flexible hinge region; other site 207559003038 Sulfatase; Region: Sulfatase; cl10460 207559003039 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 207559003040 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 207559003041 catalytic residues [active] 207559003042 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559003043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559003044 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559003045 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559003046 EamA-like transporter family; Region: EamA; cl01037 207559003047 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559003048 EamA-like transporter family; Region: EamA; cl01037 207559003049 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559003050 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 207559003051 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559003052 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559003053 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 207559003054 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 207559003055 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559003056 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 207559003057 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 207559003058 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 207559003059 FAD binding pocket [chemical binding]; other site 207559003060 FAD binding motif [chemical binding]; other site 207559003061 phosphate binding motif [ion binding]; other site 207559003062 beta-alpha-beta structure motif; other site 207559003063 NAD binding pocket [chemical binding]; other site 207559003064 Iron coordination center [ion binding]; other site 207559003065 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559003066 diiron binding motif [ion binding]; other site 207559003067 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 207559003068 active site 207559003069 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH...; Region: alkPPc; cl12039 207559003070 active site 207559003071 dimer interface [polypeptide binding]; other site 207559003072 YibE/F-like protein; Region: YibE_F; cl02259 207559003073 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 207559003074 phosphate binding site [ion binding]; other site 207559003075 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559003076 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559003077 binuclear metal center [ion binding]; other site 207559003078 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-...; Region: rubredoxin_SM; cd00729 207559003079 iron binding site [ion binding]; other site 207559003080 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 207559003081 putative active site [active] 207559003082 putative substrate binding site [chemical binding]; other site 207559003083 putative cosubstrate binding site; other site 207559003084 catalytic site [active] 207559003085 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 207559003086 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559003087 putative transposase OrfB; Reviewed; Region: PHA02517 207559003088 Integrase core domain; Region: rve; cl01316 207559003089 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 207559003090 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559003091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559003092 DNA-binding site [nucleotide binding]; DNA binding site 207559003093 FCD domain; Region: FCD; cl11656 207559003094 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 207559003095 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559003096 FemAB family; Region: FemAB; cl11444 207559003097 FemAB family; Region: FemAB; cl11444 207559003098 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 207559003099 C-term; Region: GreA_GreB; pfam01272 207559003100 putative oxidoreductase; Provisional; Region: PRK12831 207559003101 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559003102 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 207559003103 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-...; Region: DHOD_e_trans_like1; cd06219 207559003104 FAD binding pocket [chemical binding]; other site 207559003105 FAD binding motif [chemical binding]; other site 207559003106 phosphate binding motif [ion binding]; other site 207559003107 beta-alpha-beta structure motif; other site 207559003108 NAD binding pocket [chemical binding]; other site 207559003109 Iron coordination center [ion binding]; other site 207559003110 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559003111 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 207559003112 transmembrane helices; other site 207559003113 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 207559003114 Malic enzyme, N-terminal domain; Region: malic; pfam00390 207559003115 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 207559003116 putative NAD(P) binding site [chemical binding]; other site 207559003117 Fumarase C-terminus; Region: Fumerase_C; cl00795 207559003118 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 207559003119 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 207559003120 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 207559003121 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559003122 domain; Region: Succ_DH_flav_C; pfam02910 207559003123 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 207559003124 Iron-sulfur protein interface; other site 207559003125 proximal heme binding site [chemical binding]; other site 207559003126 distal heme binding site [chemical binding]; other site 207559003127 dimer interface [polypeptide binding]; other site 207559003128 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003130 active site 207559003131 phosphorylation site [posttranslational modification] 207559003132 intermolecular recognition site; other site 207559003133 dimerization interface [polypeptide binding]; other site 207559003134 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003135 Walker A motif; other site 207559003136 ATP binding site [chemical binding]; other site 207559003137 Walker B motif; other site 207559003138 arginine finger; other site 207559003139 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559003140 Cache domain; Region: Cache_2; pfam08269 207559003141 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559003142 dimer interface [polypeptide binding]; other site 207559003143 phosphorylation site [posttranslational modification] 207559003144 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003145 ATP binding site [chemical binding]; other site 207559003146 Mg2+ binding site [ion binding]; other site 207559003147 G-X-G motif; other site 207559003148 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003150 active site 207559003151 phosphorylation site [posttranslational modification] 207559003152 intermolecular recognition site; other site 207559003153 dimerization interface [polypeptide binding]; other site 207559003154 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559003155 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559003156 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003157 Walker A motif; other site 207559003158 ATP binding site [chemical binding]; other site 207559003159 Walker B motif; other site 207559003160 arginine finger; other site 207559003161 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559003162 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 207559003163 homotrimer interaction site [polypeptide binding]; other site 207559003164 putative active site [active] 207559003165 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 207559003166 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cd00640 207559003167 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559003168 catalytic residue [active] 207559003169 peptidase; Reviewed; Region: PRK13004 207559003170 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 207559003171 putative metal binding site [ion binding]; other site 207559003172 putative dimer interface [polypeptide binding]; other site 207559003173 Sodium:solute symporter family; Region: SSF; cl00456 207559003174 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 207559003175 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 207559003176 active site 207559003177 putative substrate binding pocket [chemical binding]; other site 207559003178 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559003179 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559003180 PAS fold; Region: PAS_4; pfam08448 207559003181 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559003182 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003183 Walker A motif; other site 207559003184 ATP binding site [chemical binding]; other site 207559003185 Walker B motif; other site 207559003186 arginine finger; other site 207559003187 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559003188 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559003189 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559003190 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559003191 dimer interface [polypeptide binding]; other site 207559003192 active site 207559003193 glycine loop; other site 207559003194 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559003195 DctM-like transporters; Region: DctM; pfam06808 207559003196 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559003197 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 207559003198 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559003199 PAS fold; Region: PAS_4; pfam08448 207559003200 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003201 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559003202 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 207559003203 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 207559003204 ABC transporter; Region: ABC_tran_2; pfam12848 207559003205 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 207559003206 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559003207 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559003208 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003210 active site 207559003211 phosphorylation site [posttranslational modification] 207559003212 intermolecular recognition site; other site 207559003213 dimerization interface [polypeptide binding]; other site 207559003214 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 207559003215 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559003216 dimer interface [polypeptide binding]; other site 207559003217 phosphorylation site [posttranslational modification] 207559003218 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003219 ATP binding site [chemical binding]; other site 207559003220 Mg2+ binding site [ion binding]; other site 207559003221 G-X-G motif; other site 207559003222 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003224 active site 207559003225 phosphorylation site [posttranslational modification] 207559003226 intermolecular recognition site; other site 207559003227 dimerization interface [polypeptide binding]; other site 207559003228 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559003229 binding surface 207559003230 TPR motif; other site 207559003231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559003232 Integrase core domain; Region: rve; cl01316 207559003233 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559003234 putative transposase OrfB; Reviewed; Region: PHA02517 207559003235 Integrase core domain; Region: rve; cl01316 207559003236 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559003237 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 207559003238 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 207559003239 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559003240 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 207559003241 HSP70 interaction site [polypeptide binding]; other site 207559003242 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 207559003243 Flagellin N-methylase; Region: FliB; cl00497 207559003244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003245 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559003246 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 207559003247 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate...; Region: APP_MetAP; cd01066 207559003248 active site 207559003249 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 207559003250 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559003251 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559003252 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 207559003253 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559003254 binding surface 207559003255 TPR motif; other site 207559003256 ribonuclease E; Reviewed; Region: rne; PRK10811 207559003257 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 207559003258 putative catalytic residues [active] 207559003259 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 207559003260 metal-binding site [ion binding] 207559003261 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 207559003262 metal-binding site [ion binding] 207559003263 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559003264 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 207559003265 metal-binding site [ion binding] 207559003266 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559003267 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559003268 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 207559003269 Eukaryotic UGPase catalyses the synthesis of UDP-Glucose; Region: UGPase_euk; cd00897 207559003270 active site 207559003271 substrate binding site [chemical binding]; other site 207559003272 hypothetical protein; Provisional; Region: PRK11568 207559003273 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 207559003274 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 207559003275 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 207559003276 active site 207559003277 putative interdomain interaction site [polypeptide binding]; other site 207559003278 putative metal-binding site [ion binding]; other site 207559003279 putative nucleotide binding site [chemical binding]; other site 207559003280 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cl11986 207559003281 domain I; other site 207559003282 phosphate binding site [ion binding]; other site 207559003283 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 207559003284 domain II; other site 207559003285 domain III; other site 207559003286 nucleotide binding site [chemical binding]; other site 207559003287 DNA binding groove [nucleotide binding] 207559003288 catalytic site [active] 207559003289 domain IV; other site 207559003290 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559003291 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559003292 binuclear metal center [ion binding]; other site 207559003293 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected...; Region: rubredoxin_like; cl00202 207559003294 iron binding site [ion binding]; other site 207559003295 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559003296 PAS fold; Region: PAS; pfam00989 207559003297 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559003298 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003299 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559003300 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 207559003301 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 207559003302 putative active site [active] 207559003303 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559003304 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003305 Walker A/P-loop; other site 207559003306 ATP binding site [chemical binding]; other site 207559003307 Q-loop/lid; other site 207559003308 ABC transporter signature motif; other site 207559003309 Walker B; other site 207559003310 D-loop; other site 207559003311 H-loop/switch region; other site 207559003312 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559003313 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559003314 Walker A/P-loop; other site 207559003315 ATP binding site [chemical binding]; other site 207559003316 Q-loop/lid; other site 207559003317 ABC transporter signature motif; other site 207559003318 Walker B; other site 207559003319 D-loop; other site 207559003320 H-loop/switch region; other site 207559003321 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559003322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559003323 dimer interface [polypeptide binding]; other site 207559003324 conserved gate region; other site 207559003325 putative PBP binding loops; other site 207559003326 ABC-ATPase subunit interface; other site 207559003327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559003328 dimer interface [polypeptide binding]; other site 207559003329 conserved gate region; other site 207559003330 putative PBP binding loops; other site 207559003331 ABC-ATPase subunit interface; other site 207559003332 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 207559003333 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559003334 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559003335 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 207559003336 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 207559003337 active site 207559003338 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 207559003339 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559003340 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003341 FtsX-like permease family; Region: FtsX; pfam02687 207559003342 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559003343 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003344 FtsX-like permease family; Region: FtsX; pfam02687 207559003345 Sodium:solute symporter family; Region: SSF; cl00456 207559003346 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 207559003347 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003348 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559003349 Walker A/P-loop; other site 207559003350 ATP binding site [chemical binding]; other site 207559003351 Q-loop/lid; other site 207559003352 ABC transporter signature motif; other site 207559003353 Walker B; other site 207559003354 D-loop; other site 207559003355 H-loop/switch region; other site 207559003356 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559003357 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 207559003358 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559003359 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559003360 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559003361 putative dimer interface [polypeptide binding]; other site 207559003362 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559003363 putative dimer interface [polypeptide binding]; other site 207559003364 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 207559003365 Predicted permeases [General function prediction only]; Region: RarD; COG2962 207559003366 PAS domain S-box; Region: sensory_box; TIGR00229 207559003367 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559003368 putative active site [active] 207559003369 heme pocket [chemical binding]; other site 207559003370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003371 metal binding site [ion binding]; metal-binding site 207559003372 active site 207559003373 I-site; other site 207559003374 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559003375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559003376 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 207559003377 putative FMN binding site [chemical binding]; other site 207559003378 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559003379 active site residue [active] 207559003380 SlyX; Region: SlyX; cl01090 207559003381 EVE domain; Region: EVE; cl00728 207559003382 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 207559003383 PAS domain S-box; Region: sensory_box; TIGR00229 207559003384 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559003385 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559003386 GAF domain; Region: GAF; cl00853 207559003387 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559003388 dimer interface [polypeptide binding]; other site 207559003389 phosphorylation site [posttranslational modification] 207559003390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003391 ATP binding site [chemical binding]; other site 207559003392 Mg2+ binding site [ion binding]; other site 207559003393 G-X-G motif; other site 207559003394 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003396 active site 207559003397 phosphorylation site [posttranslational modification] 207559003398 intermolecular recognition site; other site 207559003399 dimerization interface [polypeptide binding]; other site 207559003400 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003401 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003402 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 207559003403 Ca2+ binding site [ion binding]; other site 207559003404 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 207559003405 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 207559003406 dimer interface [polypeptide binding]; other site 207559003407 putative anticodon binding site; other site 207559003408 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 207559003409 motif 1; other site 207559003410 active site 207559003411 motif 2; other site 207559003412 motif 3; other site 207559003413 LolC/E family; Region: lolCE; TIGR02212 207559003414 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003415 FtsX-like permease family; Region: FtsX; pfam02687 207559003416 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 207559003417 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559003418 Walker A/P-loop; other site 207559003419 ATP binding site [chemical binding]; other site 207559003420 Q-loop/lid; other site 207559003421 ABC transporter signature motif; other site 207559003422 Walker B; other site 207559003423 D-loop; other site 207559003424 H-loop/switch region; other site 207559003425 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 207559003426 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003427 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003428 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003429 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003430 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003431 Surface antigen; Region: Bac_surface_Ag; cl03097 207559003432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 207559003433 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 207559003434 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 207559003435 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 207559003436 active site 207559003437 metal binding site [ion binding]; metal-binding site 207559003438 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 207559003439 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 207559003440 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 207559003441 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-...; Region: LbH_LpxD; cd03352 207559003442 trimer interface [polypeptide binding]; other site 207559003443 active site 207559003444 UDP-GlcNAc binding site [chemical binding]; other site 207559003445 lipid binding site [chemical binding]; lipid-binding site 207559003446 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 207559003447 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 207559003448 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 207559003449 active site 207559003450 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 207559003451 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 207559003452 substrate binding site [chemical binding]; other site 207559003453 multimerization interface [polypeptide binding]; other site 207559003454 ATP binding site [chemical binding]; other site 207559003455 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 207559003456 thiamine phosphate binding site [chemical binding]; other site 207559003457 active site 207559003458 pyrophosphate binding site [ion binding]; other site 207559003459 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559003460 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 207559003461 FAD binding pocket [chemical binding]; other site 207559003462 FAD binding motif [chemical binding]; other site 207559003463 phosphate binding motif [ion binding]; other site 207559003464 beta-alpha-beta structure motif; other site 207559003465 NAD binding pocket [chemical binding]; other site 207559003466 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 207559003467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003468 NAD(P) binding pocket [chemical binding]; other site 207559003469 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559003470 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003471 substrate binding pocket [chemical binding]; other site 207559003472 membrane-bound complex binding site; other site 207559003473 hinge residues; other site 207559003474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559003475 dimer interface [polypeptide binding]; other site 207559003476 conserved gate region; other site 207559003477 putative PBP binding loops; other site 207559003478 ABC-ATPase subunit interface; other site 207559003479 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559003480 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559003481 Walker A/P-loop; other site 207559003482 ATP binding site [chemical binding]; other site 207559003483 Q-loop/lid; other site 207559003484 ABC transporter signature motif; other site 207559003485 Walker B; other site 207559003486 D-loop; other site 207559003487 H-loop/switch region; other site 207559003488 LysE type translocator; Region: LysE; cl00565 207559003489 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea...; Region: MogA_MoaB; cd00886 207559003490 MPT binding site; other site 207559003491 trimer interface [polypeptide binding]; other site 207559003492 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003493 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559003494 Zn2+ binding site [ion binding]; other site 207559003495 Mg2+ binding site [ion binding]; other site 207559003496 UbiA prenyltransferase family; Region: UbiA; cl00337 207559003497 Protein of unknown function (DUF615); Region: DUF615; cl01147 207559003498 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003499 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559003500 putative transposase OrfB; Reviewed; Region: PHA02517 207559003501 Integrase core domain; Region: rve; cl01316 207559003502 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559003503 Nif-specific regulatory protein; Region: nifA; TIGR01817 207559003504 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003505 Walker A motif; other site 207559003506 ATP binding site [chemical binding]; other site 207559003507 Walker B motif; other site 207559003508 arginine finger; other site 207559003509 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559003510 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 207559003511 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559003512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003513 homodimer interface [polypeptide binding]; other site 207559003514 catalytic residue [active] 207559003515 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559003516 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 207559003517 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559003518 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559003519 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559003520 AIR carboxylase; Region: AIRC; cl00310 207559003521 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003523 active site 207559003524 phosphorylation site [posttranslational modification] 207559003525 intermolecular recognition site; other site 207559003526 dimerization interface [polypeptide binding]; other site 207559003527 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003528 Walker A motif; other site 207559003529 ATP binding site [chemical binding]; other site 207559003530 Walker B motif; other site 207559003531 arginine finger; other site 207559003532 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559003533 aconitate hydratase; Validated; Region: PRK07229 207559003534 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 207559003535 substrate binding site [chemical binding]; other site 207559003536 ligand binding site [chemical binding]; other site 207559003537 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 207559003538 substrate binding site [chemical binding]; other site 207559003539 periplasmic folding chaperone; Provisional; Region: PRK10788 207559003540 SurA N-terminal domain; Region: SurA_N; pfam09312 207559003541 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559003542 replicative DNA helicase; Region: DnaB; TIGR00665 207559003543 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 207559003544 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 207559003545 Walker A motif; other site 207559003546 ATP binding site [chemical binding]; other site 207559003547 Walker B motif; other site 207559003548 DNA binding loops [nucleotide binding] 207559003549 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 207559003550 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 207559003551 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 207559003552 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 207559003553 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 207559003554 OstA-like protein; Region: OstA; cl00844 207559003555 Organic solvent tolerance protein; Region: OstA_C; pfam04453 207559003556 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 207559003557 Outer membrane efflux protein; Region: OEP; pfam02321 207559003558 Outer membrane efflux protein; Region: OEP; pfam02321 207559003559 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 207559003560 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 207559003561 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 207559003562 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 207559003563 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 207559003564 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 207559003565 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559003566 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 207559003567 Walker A/P-loop; other site 207559003568 ATP binding site [chemical binding]; other site 207559003569 Q-loop/lid; other site 207559003570 ABC transporter signature motif; other site 207559003571 Walker B; other site 207559003572 D-loop; other site 207559003573 H-loop/switch region; other site 207559003574 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 207559003575 Bacterial protein of unknown function (DUF920); Region: DUF920; cl01479 207559003576 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 207559003577 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559003578 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003579 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 207559003580 Glucose inhibited division protein A; Region: GIDA; pfam01134 207559003581 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559003582 substrate binding pocket [chemical binding]; other site 207559003583 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003584 membrane-bound complex binding site; other site 207559003585 hinge residues; other site 207559003586 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 207559003587 putative homodimer interface [polypeptide binding]; other site 207559003588 putative active site pocket [active] 207559003589 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 207559003590 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 207559003591 trimer interface [polypeptide binding]; other site 207559003592 active site 207559003593 acetylornithine aminotransferase; Provisional; Region: PRK02627 207559003594 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase...; Region: OAT_like; cd00610 207559003595 inhibitor-cofactor binding pocket; inhibition site 207559003596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003597 catalytic residue [active] 207559003598 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559003599 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559003600 Walker A/P-loop; other site 207559003601 ATP binding site [chemical binding]; other site 207559003602 Q-loop/lid; other site 207559003603 ABC transporter signature motif; other site 207559003604 Walker B; other site 207559003605 D-loop; other site 207559003606 H-loop/switch region; other site 207559003607 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003608 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559003609 substrate binding pocket [chemical binding]; other site 207559003610 membrane-bound complex binding site; other site 207559003611 hinge residues; other site 207559003612 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559003613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559003614 dimer interface [polypeptide binding]; other site 207559003615 conserved gate region; other site 207559003616 putative PBP binding loops; other site 207559003617 ABC-ATPase subunit interface; other site 207559003618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559003619 dimer interface [polypeptide binding]; other site 207559003620 conserved gate region; other site 207559003621 putative PBP binding loops; other site 207559003622 ABC-ATPase subunit interface; other site 207559003623 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 207559003624 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559003625 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559003626 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 207559003627 putative active site [active] 207559003628 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 207559003629 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559003630 minor groove reading motif; other site 207559003631 helix-hairpin-helix signature motif; other site 207559003632 substrate binding pocket [chemical binding]; other site 207559003633 active site 207559003634 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 207559003635 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 207559003636 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559003637 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 207559003638 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 207559003639 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 207559003640 protein binding site [polypeptide binding]; other site 207559003641 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 207559003642 Catalytic dyad [active] 207559003643 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 207559003644 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 207559003645 active site 207559003646 multimer interface [polypeptide binding]; other site 207559003647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003648 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 207559003649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 207559003650 Smr domain; Region: Smr; cl02619 207559003651 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 207559003652 tandem repeat interface [polypeptide binding]; other site 207559003653 oligomer interface [polypeptide binding]; other site 207559003654 active site residues [active] 207559003655 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 207559003656 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 207559003657 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 207559003658 Walker A/P-loop; other site 207559003659 ATP binding site [chemical binding]; other site 207559003660 Q-loop/lid; other site 207559003661 ABC transporter signature motif; other site 207559003662 Walker B; other site 207559003663 D-loop; other site 207559003664 H-loop/switch region; other site 207559003665 Rhomboid family; Region: Rhomboid; cl11446 207559003666 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 207559003667 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 207559003668 RNA binding surface [nucleotide binding]; other site 207559003669 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 207559003670 active site 207559003671 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 207559003672 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 207559003673 CoA-binding site [chemical binding]; other site 207559003674 ATP-binding [chemical binding]; other site 207559003675 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559003676 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559003677 Permease family; Region: Xan_ur_permease; pfam00860 207559003678 cytidylate kinase; Provisional; Region: cmk; PRK00023 207559003679 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 207559003680 CMP-binding site; other site 207559003681 The sites determining sugar specificity; other site 207559003682 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 207559003683 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559003684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003685 homodimer interface [polypeptide binding]; other site 207559003686 catalytic residue [active] 207559003687 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559003688 Ligand Binding Site [chemical binding]; other site 207559003689 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559003690 S-adenosylmethionine binding site [chemical binding]; other site 207559003691 Competence-damaged protein; Region: CinA; cl00666 207559003692 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559003693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003694 substrate binding pocket [chemical binding]; other site 207559003695 membrane-bound complex binding site; other site 207559003696 hinge residues; other site 207559003697 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 207559003698 active site 207559003699 catalytic motif [active] 207559003700 Zn binding site [ion binding]; other site 207559003701 PilZ domain; Region: PilZ; cl01260 207559003702 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559003703 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 207559003704 mercuric reductase; Validated; Region: PRK06370 207559003705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559003706 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559003707 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-...; Region: HisA; cd04732 207559003708 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 207559003709 catalytic residues [active] 207559003710 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 207559003711 4-fold oligomerization interface [polypeptide binding]; other site 207559003712 putative active site pocket [active] 207559003713 metal binding residues [ion binding]; metal-binding site 207559003714 3-fold/trimer interface [polypeptide binding]; other site 207559003715 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 207559003716 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 207559003717 GMP synthase; Reviewed; Region: guaA; PRK00074 207559003718 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 207559003719 AMP/PPi binding site [chemical binding]; other site 207559003720 candidate oxyanion hole; other site 207559003721 catalytic triad [active] 207559003722 potential glutamine specificity residues [chemical binding]; other site 207559003723 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 207559003724 ATP Binding subdomain [chemical binding]; other site 207559003725 Ligand Binding sites [chemical binding]; other site 207559003726 Dimerization subdomain; other site 207559003727 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 207559003728 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 207559003729 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 207559003730 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 207559003731 active site 207559003732 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 207559003733 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559003734 binding surface 207559003735 TPR motif; other site 207559003736 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559003737 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559003738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559003739 Walker A/P-loop; other site 207559003740 ATP binding site [chemical binding]; other site 207559003741 Q-loop/lid; other site 207559003742 ABC transporter signature motif; other site 207559003743 Walker B; other site 207559003744 D-loop; other site 207559003745 H-loop/switch region; other site 207559003746 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559003747 CcmE; Region: CcmE; cl00994 207559003748 Domain of unknown function DUF21; Region: DUF21; pfam01595 207559003749 FOG: CBS domain [General function prediction only]; Region: COG0517 207559003750 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 207559003751 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559003752 active site 207559003753 motif I; other site 207559003754 motif II; other site 207559003755 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559003756 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 207559003757 putative active site [active] 207559003758 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559003759 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559003760 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 207559003761 Probable Catalytic site [active] 207559003762 metal binding site [ion binding]; metal-binding site 207559003763 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559003764 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559003765 active site 207559003766 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559003767 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559003768 active site 207559003769 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 207559003770 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559003771 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 207559003772 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 207559003773 substrate binding site [chemical binding]; other site 207559003774 ATP binding site [chemical binding]; other site 207559003775 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 207559003776 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 207559003777 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559003778 minor groove reading motif; other site 207559003779 helix-hairpin-helix signature motif; other site 207559003780 substrate binding pocket [chemical binding]; other site 207559003781 active site 207559003782 FES domain; Region: FES; smart00525 207559003783 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 207559003784 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559003785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003786 active site 207559003787 phosphorylation site [posttranslational modification] 207559003788 intermolecular recognition site; other site 207559003789 dimerization interface [polypeptide binding]; other site 207559003790 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 207559003791 trimer interface [polypeptide binding]; other site 207559003792 active site 207559003793 substrate binding site [chemical binding]; other site 207559003794 CoA binding site [chemical binding]; other site 207559003795 S-adenosylmethionine synthetase; Validated; Region: PRK05250 207559003796 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 207559003797 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 207559003798 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 207559003799 Protein of unknown function (DUF502); Region: DUF502; cl01107 207559003800 pantoate--beta-alanine ligase; Region: panC; TIGR00018 207559003801 Pantoate-beta-alanine ligase; Region: PanC; cd00560 207559003802 active site 207559003803 ATP-binding site [chemical binding]; other site 207559003804 pantoate-binding site; other site 207559003805 HXXH motif; other site 207559003806 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 207559003807 active site 207559003808 oligomerization interface [polypeptide binding]; other site 207559003809 metal binding site [ion binding]; metal-binding site 207559003810 flagellin; Provisional; Region: PRK12802 207559003811 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559003812 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559003813 flagellin; Provisional; Region: PRK12802 207559003814 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559003815 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559003816 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 207559003817 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559003818 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559003819 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 207559003820 putative ligand binding site [chemical binding]; other site 207559003821 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 207559003822 TM-ABC transporter signature motif; other site 207559003823 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 207559003824 TM-ABC transporter signature motif; other site 207559003825 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 207559003826 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 207559003827 Walker A/P-loop; other site 207559003828 ATP binding site [chemical binding]; other site 207559003829 Q-loop/lid; other site 207559003830 ABC transporter signature motif; other site 207559003831 Walker B; other site 207559003832 D-loop; other site 207559003833 H-loop/switch region; other site 207559003834 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 207559003835 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 207559003836 Cation efflux family; Region: Cation_efflux; cl00316 207559003837 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 207559003838 FtsH Extracellular; Region: FtsH_ext; pfam06480 207559003839 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 207559003840 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003841 Walker A motif; other site 207559003842 ATP binding site [chemical binding]; other site 207559003843 Walker B motif; other site 207559003844 arginine finger; other site 207559003845 Peptidase family M41; Region: Peptidase_M41; pfam01434 207559003846 dihydropteroate synthase; Region: DHPS; TIGR01496 207559003847 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 207559003848 substrate binding pocket [chemical binding]; other site 207559003849 dimer interface [polypeptide binding]; other site 207559003850 inhibitor binding site; inhibition site 207559003851 TIGR00159 family protein; Region: TIGR00159 207559003852 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 207559003853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 207559003854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 207559003855 YbbR-like protein; Region: YbbR; pfam07949 207559003856 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 207559003857 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 207559003858 active site 207559003859 substrate binding site [chemical binding]; other site 207559003860 metal binding site [ion binding]; metal-binding site 207559003861 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 207559003862 active site 207559003863 tetramer interface [polypeptide binding]; other site 207559003864 primosome assembly protein PriA; Validated; Region: PRK05580 207559003865 primosome assembly protein PriA; Validated; Region: PRK05580 207559003866 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559003867 ATP binding site [chemical binding]; other site 207559003868 putative Mg++ binding site [ion binding]; other site 207559003869 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559003870 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003872 active site 207559003873 phosphorylation site [posttranslational modification] 207559003874 intermolecular recognition site; other site 207559003875 dimerization interface [polypeptide binding]; other site 207559003876 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003878 active site 207559003879 phosphorylation site [posttranslational modification] 207559003880 intermolecular recognition site; other site 207559003881 dimerization interface [polypeptide binding]; other site 207559003882 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559003883 dimer interface [polypeptide binding]; other site 207559003884 phosphorylation site [posttranslational modification] 207559003885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003886 ATP binding site [chemical binding]; other site 207559003887 Mg2+ binding site [ion binding]; other site 207559003888 G-X-G motif; other site 207559003889 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559003891 active site 207559003892 phosphorylation site [posttranslational modification] 207559003893 intermolecular recognition site; other site 207559003894 dimerization interface [polypeptide binding]; other site 207559003895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559003896 Integrase core domain; Region: rve; cl01316 207559003897 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559003898 CobD/Cbib protein; Region: CobD_Cbib; cl00561 207559003899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559003900 flavoprotein, HI0933 family; Region: TIGR00275 207559003901 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 207559003902 Cytochrome P450; Region: p450; cl12078 207559003903 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 207559003904 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 207559003905 G1 box; other site 207559003906 putative GEF interaction site [polypeptide binding]; other site 207559003907 GTP/Mg2+ binding site [chemical binding]; other site 207559003908 Switch I region; other site 207559003909 G2 box; other site 207559003910 G3 box; other site 207559003911 Switch II region; other site 207559003912 G4 box; other site 207559003913 G5 box; other site 207559003914 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 207559003915 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a...; Region: BipA_TypA_C; cd03710 207559003916 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003917 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003918 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 207559003919 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 207559003920 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559003921 flagellar motor protein MotD; Reviewed; Region: PRK09038 207559003922 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559003923 ligand binding site [chemical binding]; other site 207559003924 PilZ domain; Region: PilZ; cl01260 207559003925 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559003926 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 207559003927 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559003928 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 207559003929 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 207559003930 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 207559003931 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 207559003932 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 207559003933 dimer interface [polypeptide binding]; other site 207559003934 ssDNA binding site [nucleotide binding]; other site 207559003935 tetramer (dimer of dimers) interface [polypeptide binding]; other site 207559003936 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 207559003937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559003938 Bacterial transcriptional regulator; Region: IclR; pfam01614 207559003939 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 207559003940 alanine racemase; Reviewed; Region: alr; PRK00053 207559003941 active site 207559003942 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559003943 dimer interface [polypeptide binding]; other site 207559003944 substrate binding site [chemical binding]; other site 207559003945 catalytic residues [active] 207559003946 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 207559003947 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559003948 DctM-like transporters; Region: DctM; pfam06808 207559003949 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559003950 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 207559003951 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559003952 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559003953 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559003954 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003955 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559003956 Walker A motif; other site 207559003957 ATP binding site [chemical binding]; other site 207559003958 Walker B motif; other site 207559003959 arginine finger; other site 207559003960 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 207559003961 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 207559003962 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 207559003963 thiS-thiF/thiG interaction site; other site 207559003964 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 207559003965 phosphate binding site [ion binding]; other site 207559003966 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 207559003967 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559003968 FeS/SAM binding site; other site 207559003969 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559003970 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 207559003971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003972 ATP binding site [chemical binding]; other site 207559003973 substrate interface [chemical binding]; other site 207559003974 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 207559003975 thiamine phosphate binding site [chemical binding]; other site 207559003976 active site 207559003977 pyrophosphate binding site [ion binding]; other site 207559003978 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 207559003979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559003980 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559003981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559003982 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559003983 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559003984 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 207559003985 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 207559003986 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559003987 ATP binding site [chemical binding]; other site 207559003988 putative Mg++ binding site [ion binding]; other site 207559003989 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559003990 nucleotide binding region [chemical binding]; other site 207559003991 ATP-binding site [chemical binding]; other site 207559003992 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 207559003993 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559003994 Transposase domain (DUF772); Region: DUF772; cl12084 207559003995 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 207559003996 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 207559003997 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559003998 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 207559003999 synthetase active site [active] 207559004000 NTP binding site [chemical binding]; other site 207559004001 metal binding site [ion binding]; metal-binding site 207559004002 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 207559004003 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 207559004004 flagellin; Provisional; Region: PRK12802 207559004005 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004006 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004007 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 207559004008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004009 active site 207559004010 phosphorylation site [posttranslational modification] 207559004011 intermolecular recognition site; other site 207559004012 CheB methylesterase; Region: CheB_methylest; pfam01339 207559004013 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 207559004014 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 207559004015 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 207559004016 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559004017 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559004018 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559004019 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559004020 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559004021 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 207559004022 Magnesium ion binding site [ion binding]; other site 207559004023 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559004024 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004026 active site 207559004027 phosphorylation site [posttranslational modification] 207559004028 intermolecular recognition site; other site 207559004029 dimerization interface [polypeptide binding]; other site 207559004030 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 207559004031 putative binding surface; other site 207559004032 active site 207559004033 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 207559004034 putative binding surface; other site 207559004035 active site 207559004036 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 207559004037 putative binding surface; other site 207559004038 active site 207559004039 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 207559004040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004041 ATP binding site [chemical binding]; other site 207559004042 Mg2+ binding site [ion binding]; other site 207559004043 G-X-G motif; other site 207559004044 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 207559004045 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559004046 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 207559004047 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 207559004048 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559004049 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559004050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004051 active site 207559004052 phosphorylation site [posttranslational modification] 207559004053 intermolecular recognition site; other site 207559004054 dimerization interface [polypeptide binding]; other site 207559004055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004056 metal binding site [ion binding]; metal-binding site 207559004057 active site 207559004058 I-site; other site 207559004059 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559004060 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 207559004061 Int/Topo IB signature motif; other site 207559004062 active site 207559004063 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 207559004064 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 207559004065 FMN binding site [chemical binding]; other site 207559004066 substrate binding site [chemical binding]; other site 207559004067 putative catalytic residue [active] 207559004068 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 207559004069 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559004070 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559004071 UvrD/REP helicase; Region: UvrD-helicase; cl14126 207559004072 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 207559004073 UvrD/REP helicase; Region: UvrD-helicase; cl14126 207559004074 6-phosphofructokinase; Provisional; Region: PRK03202 207559004075 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 207559004076 active site 207559004077 ADP/pyrophosphate binding site [chemical binding]; other site 207559004078 dimerization interface [polypeptide binding]; other site 207559004079 allosteric effector site; other site 207559004080 fructose-1,6-bisphosphate binding site; other site 207559004081 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 207559004082 Probable Catalytic site [active] 207559004083 metal binding site [ion binding]; metal-binding site 207559004084 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559004085 PSP1 C-terminal conserved region; Region: PSP1; cl00770 207559004086 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 207559004087 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 207559004088 active site 207559004089 HIGH motif; other site 207559004090 KMSKS motif; other site 207559004091 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 207559004092 tRNA binding surface [nucleotide binding]; other site 207559004093 anticodon binding site; other site 207559004094 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 207559004095 dimer interface [polypeptide binding]; other site 207559004096 putative tRNA-binding site [nucleotide binding]; other site 207559004097 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 207559004098 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 207559004099 Ligand binding site [chemical binding]; other site 207559004100 Putative Catalytic site [active] 207559004101 DXD motif; other site 207559004102 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 207559004103 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 207559004104 G1 box; other site 207559004105 GTP/Mg2+ binding site [chemical binding]; other site 207559004106 Switch I region; other site 207559004107 G2 box; other site 207559004108 G3 box; other site 207559004109 Switch II region; other site 207559004110 G4 box; other site 207559004111 G5 box; other site 207559004112 Nucleoside recognition; Region: Gate; cl00486 207559004113 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 207559004114 Nucleoside recognition; Region: Gate; cl00486 207559004115 FeoA domain; Region: FeoA; cl00838 207559004116 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 207559004117 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 207559004118 N-terminal plug; other site 207559004119 ligand-binding site [chemical binding]; other site 207559004120 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559004121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559004122 Walker A/P-loop; other site 207559004123 ATP binding site [chemical binding]; other site 207559004124 Q-loop/lid; other site 207559004125 ABC transporter signature motif; other site 207559004126 Walker B; other site 207559004127 D-loop; other site 207559004128 H-loop/switch region; other site 207559004129 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559004130 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559004131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559004132 Walker A/P-loop; other site 207559004133 ATP binding site [chemical binding]; other site 207559004134 Q-loop/lid; other site 207559004135 ABC transporter signature motif; other site 207559004136 Walker B; other site 207559004137 D-loop; other site 207559004138 H-loop/switch region; other site 207559004139 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_III; cd01996 207559004140 Ligand Binding Site [chemical binding]; other site 207559004141 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 207559004142 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 207559004143 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 207559004144 Thioesterase domain; Region: Thioesterase; pfam00975 207559004145 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004146 Transposase domain (DUF772); Region: DUF772; cl12084 207559004147 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 207559004148 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 207559004149 active site 207559004150 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559004151 Acyl transferase domain; Region: Acyl_transf_1; cl08282 207559004152 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559004153 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 207559004154 NADP binding site [chemical binding]; other site 207559004155 active site 207559004156 Condensation domain; Region: Condensation; cl09290 207559004157 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004158 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004159 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559004160 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004161 Thioesterase domain; Region: Thioesterase; pfam00975 207559004162 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004163 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 207559004164 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 207559004165 active site 207559004166 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559004167 Acyl transferase domain; Region: Acyl_transf_1; cl08282 207559004168 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004169 Condensation domain; Region: Condensation; cl09290 207559004170 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004171 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 207559004172 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559004173 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004174 Condensation domain; Region: Condensation; cl09290 207559004175 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004176 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004177 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559004178 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004179 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 207559004180 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559004181 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559004182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559004183 DNA-binding site [nucleotide binding]; DNA binding site 207559004184 FCD domain; Region: FCD; cl11656 207559004185 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559004186 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 207559004187 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559004188 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 207559004189 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559004190 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559004191 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559004192 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 207559004193 catalytic triad [active] 207559004194 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559004195 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 207559004196 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 207559004197 putative metal binding site [ion binding]; other site 207559004198 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 207559004199 ABC-ATPase subunit interface; other site 207559004200 dimer interface [polypeptide binding]; other site 207559004201 putative PBP binding regions; other site 207559004202 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 207559004203 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 207559004204 Walker A/P-loop; other site 207559004205 ATP binding site [chemical binding]; other site 207559004206 Q-loop/lid; other site 207559004207 ABC transporter signature motif; other site 207559004208 Walker B; other site 207559004209 D-loop; other site 207559004210 H-loop/switch region; other site 207559004211 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 207559004212 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 207559004213 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559004214 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 207559004215 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559004216 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559004217 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain...; Region: CBS_pair_GGDEF_assoc; cd04598 207559004218 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004220 metal binding site [ion binding]; metal-binding site 207559004221 active site 207559004222 I-site; other site 207559004223 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559004224 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 207559004225 putative active site [active] 207559004226 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559004227 TPR motif; other site 207559004228 binding surface 207559004229 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004231 active site 207559004232 phosphorylation site [posttranslational modification] 207559004233 intermolecular recognition site; other site 207559004234 dimerization interface [polypeptide binding]; other site 207559004235 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559004236 PAS domain S-box; Region: sensory_box; TIGR00229 207559004237 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559004238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004239 metal binding site [ion binding]; metal-binding site 207559004240 active site 207559004241 I-site; other site 207559004242 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 207559004243 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 207559004244 active site 207559004245 (T/H)XGH motif; other site 207559004246 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 207559004247 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 207559004248 putative catalytic cysteine [active] 207559004249 Nif-specific regulatory protein; Region: nifA; TIGR01817 207559004250 GAF domain; Region: GAF; cl00853 207559004251 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559004252 Walker A motif; other site 207559004253 ATP binding site [chemical binding]; other site 207559004254 Walker B motif; other site 207559004255 arginine finger; other site 207559004256 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559004257 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 207559004258 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559004259 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 207559004260 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 207559004261 TPP-binding site [chemical binding]; other site 207559004262 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 207559004263 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 207559004264 dimer interface [polypeptide binding]; other site 207559004265 PYR/PP interface [polypeptide binding]; other site 207559004266 TPP binding site [chemical binding]; other site 207559004267 substrate binding site [chemical binding]; other site 207559004268 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559004269 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 207559004270 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 207559004271 DAK2 domain; Region: Dak2; cl03685 207559004272 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 207559004273 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 207559004274 proposed catalytic triad [active] 207559004275 conserved cys residue [active] 207559004276 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559004277 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559004278 putative substrate translocation pore; other site 207559004279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559004280 Integrase core domain; Region: rve; cl01316 207559004281 hypothetical protein; Provisional; Region: PRK13560 207559004282 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004283 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559004284 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 207559004285 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 207559004286 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 207559004287 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559004288 Zn2+ binding site [ion binding]; other site 207559004289 Mg2+ binding site [ion binding]; other site 207559004290 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 207559004291 PhoH-like protein; Region: PhoH; cl12134 207559004292 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559004293 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 207559004294 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 207559004295 tetramer interface [polypeptide binding]; other site 207559004296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559004297 catalytic residue [active] 207559004298 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 207559004299 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 207559004300 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 207559004301 chaperone protein DnaJ; Provisional; Region: PRK14299 207559004302 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 207559004303 HSP70 interaction site [polypeptide binding]; other site 207559004304 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 207559004305 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559004306 DNA binding residues [nucleotide binding] 207559004307 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 207559004308 Clp amino terminal domain; Region: Clp_N; pfam02861 207559004309 Clp amino terminal domain; Region: Clp_N; pfam02861 207559004310 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559004311 Walker A motif; other site 207559004312 ATP binding site [chemical binding]; other site 207559004313 Walker B motif; other site 207559004314 arginine finger; other site 207559004315 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559004316 Walker A motif; other site 207559004317 ATP binding site [chemical binding]; other site 207559004318 Walker B motif; other site 207559004319 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559004320 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 207559004321 substrate binding site [chemical binding]; other site 207559004322 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 207559004323 Aspartase; Region: Aspartase; cd01357 207559004324 active sites [active] 207559004325 tetramer interface [polypeptide binding]; other site 207559004326 Putative cyclase; Region: Cyclase; cl00814 207559004327 Cache domain; Region: Cache_1; pfam02743 207559004328 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559004329 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559004330 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559004331 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559004332 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559004333 binding surface 207559004334 TPR motif; other site 207559004335 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 207559004336 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a...; Region: CobA_CobO_BtuR; cd00561 207559004337 Walker A motif; other site 207559004338 homodimer interface [polypeptide binding]; other site 207559004339 ATP binding site [chemical binding]; other site 207559004340 hydroxycobalamin binding site [chemical binding]; other site 207559004341 Walker B motif; other site 207559004342 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 207559004343 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559004344 FeS/SAM binding site; other site 207559004345 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 207559004346 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 207559004347 dimerization interface [polypeptide binding]; other site 207559004348 putative ATP binding site [chemical binding]; other site 207559004349 putative transposase OrfB; Reviewed; Region: PHA02517 207559004350 Integrase core domain; Region: rve; cl01316 207559004351 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559004352 FeS/SAM binding site; other site 207559004353 ThiC family; Region: ThiC; cl08031 207559004354 glycerate dehydrogenase; Provisional; Region: PRK06487 207559004355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004356 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 207559004357 AsmA family; Region: AsmA; pfam05170 207559004358 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559004359 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559004360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559004361 phosphorylation site [posttranslational modification] 207559004362 dimer interface [polypeptide binding]; other site 207559004363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004364 ATP binding site [chemical binding]; other site 207559004365 Mg2+ binding site [ion binding]; other site 207559004366 G-X-G motif; other site 207559004367 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559004368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004369 active site 207559004370 phosphorylation site [posttranslational modification] 207559004371 intermolecular recognition site; other site 207559004372 dimerization interface [polypeptide binding]; other site 207559004373 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559004374 Walker A motif; other site 207559004375 ATP binding site [chemical binding]; other site 207559004376 Walker B motif; other site 207559004377 arginine finger; other site 207559004378 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559004379 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 207559004380 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 207559004381 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004382 ligand binding site [chemical binding]; other site 207559004383 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 207559004384 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 207559004385 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559004386 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559004387 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 207559004388 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559004389 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559004390 catalytic residue [active] 207559004391 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 207559004392 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559004393 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559004394 catalytic residue [active] 207559004395 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-...; Region: GCS_H; cd06848 207559004396 lipoyl attachment site [posttranslational modification]; other site 207559004397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004398 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004399 active site 207559004400 phosphorylation site [posttranslational modification] 207559004401 intermolecular recognition site; other site 207559004402 dimerization interface [polypeptide binding]; other site 207559004403 phosphoglucomutase; Validated; Region: PRK07564 207559004404 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 207559004405 active site 207559004406 substrate binding site [chemical binding]; other site 207559004407 metal binding site [ion binding]; metal-binding site 207559004408 Haemolysin-III related; Region: HlyIII; cl03831 207559004409 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559004410 dimer interface [polypeptide binding]; other site 207559004411 phosphorylation site [posttranslational modification] 207559004412 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004413 ATP binding site [chemical binding]; other site 207559004414 Mg2+ binding site [ion binding]; other site 207559004415 G-X-G motif; other site 207559004416 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004418 active site 207559004419 phosphorylation site [posttranslational modification] 207559004420 intermolecular recognition site; other site 207559004421 dimerization interface [polypeptide binding]; other site 207559004422 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 207559004423 GTP-binding protein YchF; Reviewed; Region: PRK09601 207559004424 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 207559004425 G1 box; other site 207559004426 GTP/Mg2+ binding site [chemical binding]; other site 207559004427 Switch I region; other site 207559004428 G2 box; other site 207559004429 Switch II region; other site 207559004430 G3 box; other site 207559004431 G4 box; other site 207559004432 G5 box; other site 207559004433 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 207559004434 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559004435 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559004436 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559004437 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559004438 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559004439 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 207559004440 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 207559004441 anti sigma factor interaction site; other site 207559004442 regulatory phosphorylation site [posttranslational modification]; other site 207559004443 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 207559004444 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559004445 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 207559004446 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 207559004447 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559004448 putative substrate translocation pore; other site 207559004449 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559004450 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 207559004451 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559004452 DRTGG domain; Region: DRTGG; cl12147 207559004453 ribonuclease III; Reviewed; Region: rnc; PRK00102 207559004454 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 207559004455 dimerization interface [polypeptide binding]; other site 207559004456 active site 207559004457 metal binding site [ion binding]; metal-binding site 207559004458 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase...; Region: DSRM; cd00048 207559004459 dsRNA binding site [nucleotide binding]; other site 207559004460 flagellin; Provisional; Region: PRK12802 207559004461 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004462 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004463 FlaG protein; Region: FlaG; cl00591 207559004464 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 207559004465 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 207559004466 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 207559004467 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 207559004468 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 207559004469 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 207559004470 Flagellar hook capping protein; Region: FlgD; cl04347 207559004471 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 207559004472 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 207559004473 putative active site [active] 207559004474 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559004475 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559004476 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 207559004477 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004478 ligand binding site [chemical binding]; other site 207559004479 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559004480 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559004481 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 207559004482 anti sigma factor interaction site; other site 207559004483 regulatory phosphorylation site [posttranslational modification]; other site 207559004484 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004485 Transposase domain (DUF772); Region: DUF772; cl12084 207559004486 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 207559004487 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004489 active site 207559004490 phosphorylation site [posttranslational modification] 207559004491 intermolecular recognition site; other site 207559004492 dimerization interface [polypeptide binding]; other site 207559004493 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 207559004494 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 207559004495 putative active site [active] 207559004496 dimerization interface [polypeptide binding]; other site 207559004497 putative tRNAtyr binding site [nucleotide binding]; other site 207559004498 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 207559004499 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559004500 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 207559004501 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 207559004502 substrate binding site [chemical binding]; other site 207559004503 dimer interface [polypeptide binding]; other site 207559004504 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 207559004505 homotrimer interaction site [polypeptide binding]; other site 207559004506 zinc binding site [ion binding]; other site 207559004507 CDP-binding sites; other site 207559004508 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 207559004509 Putative zinc ribbon domain; Region: DUF164; pfam02591 207559004510 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 207559004511 Phage integrase family; Region: Phage_integrase; pfam00589 207559004512 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 207559004513 Int/Topo IB signature motif; other site 207559004514 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559004515 BRO family, N-terminal domain; Region: Bro-N; pfam02498 207559004516 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559004517 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559004518 catalytic residues [active] 207559004519 catalytic nucleophile [active] 207559004520 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559004521 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559004522 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559004523 Synaptic Site I dimer interface [polypeptide binding]; other site 207559004524 DNA binding site [nucleotide binding] 207559004525 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559004526 DNA-binding interface [nucleotide binding]; DNA binding site 207559004527 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559004528 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559004529 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559004530 putative dimer interface [polypeptide binding]; other site 207559004531 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 207559004532 BRO family, N-terminal domain; Region: Bro-N; pfam02498 207559004533 Restriction endonuclease [Defense mechanisms]; Region: COG3587 207559004534 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559004535 ATP binding site [chemical binding]; other site 207559004536 putative Mg++ binding site [ion binding]; other site 207559004537 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cl00083 207559004538 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 207559004539 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559004540 putative transposase OrfB; Reviewed; Region: PHA02517 207559004541 Integrase core domain; Region: rve; cl01316 207559004542 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559004543 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 207559004544 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559004545 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 207559004546 putative active site [active] 207559004547 catalytic site [active] 207559004548 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 207559004549 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559004550 ATP binding site [chemical binding]; other site 207559004551 putative Mg++ binding site [ion binding]; other site 207559004552 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559004553 nucleotide binding region [chemical binding]; other site 207559004554 ATP-binding site [chemical binding]; other site 207559004555 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559004556 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004557 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559004558 Heme NO binding; Region: HNOB; pfam07700 207559004559 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 207559004560 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559004561 Cache domain; Region: Cache_2; pfam08269 207559004562 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559004563 dimerization interface [polypeptide binding]; other site 207559004564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004565 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559004566 Domain of unknown function DUF143; Region: DUF143; cl00519 207559004567 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 207559004568 Sulfatase; Region: Sulfatase; cl10460 207559004569 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 207559004570 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 207559004571 putative active site [active] 207559004572 catalytic triad [active] 207559004573 CTP synthetase; Validated; Region: pyrG; PRK05380 207559004574 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer...; Region: CTGs; cd03113 207559004575 Catalytic site [active] 207559004576 Active site [active] 207559004577 UTP binding site [chemical binding]; other site 207559004578 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 207559004579 active site 207559004580 putative oxyanion hole; other site 207559004581 catalytic triad [active] 207559004582 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 207559004583 NeuB family; Region: NeuB; cl00496 207559004584 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559004585 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 207559004586 OstA-like protein; Region: OstA; cl00844 207559004587 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 207559004588 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 207559004589 Walker A/P-loop; other site 207559004590 ATP binding site [chemical binding]; other site 207559004591 Q-loop/lid; other site 207559004592 ABC transporter signature motif; other site 207559004593 Walker B; other site 207559004594 D-loop; other site 207559004595 H-loop/switch region; other site 207559004596 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 207559004597 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 207559004598 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 207559004599 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 207559004600 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 207559004601 30S subunit binding site; other site 207559004602 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 207559004603 active site 207559004604 phosphorylation site [posttranslational modification] 207559004605 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 207559004606 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 207559004607 active pocket/dimerization site; other site 207559004608 active site 207559004609 phosphorylation site [posttranslational modification] 207559004610 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cl00021 207559004611 active site 207559004612 phosphorylation site [posttranslational modification] 207559004613 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 207559004614 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 207559004615 DHHA2 domain; Region: DHHA2; pfam02833 207559004616 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 207559004617 nucleoside/Zn binding site; other site 207559004618 dimer interface [polypeptide binding]; other site 207559004619 catalytic motif [active] 207559004620 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 207559004621 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 207559004622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559004623 Beta-Casp domain; Region: Beta-Casp; pfam10996 207559004624 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 207559004625 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559004626 S-adenosylmethionine binding site [chemical binding]; other site 207559004627 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 207559004628 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 207559004629 active site 207559004630 (T/H)XGH motif; other site 207559004631 IPP transferase; Region: IPPT; cl00403 207559004632 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559004633 binding surface 207559004634 TPR motif; other site 207559004635 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 207559004636 Stage II sporulation protein; Region: SpoIID; cl07201 207559004637 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 207559004638 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 207559004639 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 207559004640 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559004641 catalytic residue [active] 207559004642 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 207559004643 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 207559004644 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 207559004645 Active Sites [active] 207559004646 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 207559004647 Ferritin-like domain; Region: Ferritin; pfam00210 207559004648 ferroxidase diiron center [ion binding]; other site 207559004649 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 207559004650 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559004651 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 207559004652 dimer interface [polypeptide binding]; other site 207559004653 PYR/PP interface [polypeptide binding]; other site 207559004654 TPP binding site [chemical binding]; other site 207559004655 substrate binding site [chemical binding]; other site 207559004656 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 207559004657 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 207559004658 TPP-binding site [chemical binding]; other site 207559004659 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 207559004660 DsrE/DsrF-like family; Region: DrsE; cl00672 207559004661 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 207559004662 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 207559004663 putative active site [active] 207559004664 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 207559004665 dihydrodipicolinate synthase; Region: dapA; TIGR00674 207559004666 dimer interface [polypeptide binding]; other site 207559004667 active site 207559004668 catalytic residue [active] 207559004669 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 207559004670 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 207559004671 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 207559004672 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559004673 IHF - DNA interface [nucleotide binding]; other site 207559004674 IHF dimer interface [polypeptide binding]; other site 207559004675 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559004676 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559004677 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 207559004678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004679 metal binding site [ion binding]; metal-binding site 207559004680 active site 207559004681 I-site; other site 207559004682 Transposase domain (DUF772); Region: DUF772; cl12084 207559004683 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004685 peptide chain release factor 2; Validated; Region: prfB; PRK00578 207559004686 RF-1 domain; Region: RF-1; cl02875 207559004687 RF-1 domain; Region: RF-1; cl02875 207559004688 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 207559004689 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 207559004690 putative active site [active] 207559004691 catalytic triad [active] 207559004692 putative dimer interface [polypeptide binding]; other site 207559004693 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004694 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 207559004695 Transporter associated domain; Region: CorC_HlyC; pfam03471 207559004696 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 207559004697 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 207559004698 diaminopimelate aminotransferase; Provisional; Region: PRK13983 207559004699 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 207559004700 metal binding site [ion binding]; metal-binding site 207559004701 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 207559004702 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 207559004703 active site 207559004704 putative substrate binding pocket [chemical binding]; other site 207559004705 Esterase/lipase [General function prediction only]; Region: COG1647 207559004706 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559004707 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 207559004708 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant...; Region: GltS_FMN; cd02808 207559004709 active site 207559004710 FMN binding site [chemical binding]; other site 207559004711 substrate binding site [chemical binding]; other site 207559004712 3Fe-4S cluster binding site [ion binding]; other site 207559004713 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 207559004714 putative active site [active] 207559004715 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous...; Region: arch_gltB; cd00981 207559004716 putative subunit interface; other site 207559004717 Preprotein translocase subunit; Region: YajC; cl00806 207559004718 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 207559004719 Protein export membrane protein; Region: SecD_SecF; cl14618 207559004720 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 207559004721 Protein export membrane protein; Region: SecD_SecF; cl14618 207559004722 Cytochrome c; Region: Cytochrom_C; cl11414 207559004723 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 207559004724 Cu(I) binding site [ion binding]; other site 207559004725 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 207559004726 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 207559004727 D-pathway; other site 207559004728 Low-spin heme binding site [chemical binding]; other site 207559004729 Putative water exit pathway; other site 207559004730 Binuclear center (active site) [active] 207559004731 K-pathway; other site 207559004732 Putative proton exit pathway; other site 207559004733 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits...; Region: NorE_like; cd02862 207559004734 Subunit I/III interface [polypeptide binding]; other site 207559004735 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 207559004736 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 207559004737 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 207559004738 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 207559004739 Cytochrome c; Region: Cytochrom_C; cl11414 207559004740 UbiA prenyltransferase family; Region: UbiA; cl00337 207559004741 L-aspartate oxidase; Provisional; Region: PRK09077 207559004742 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559004743 domain; Region: Succ_DH_flav_C; pfam02910 207559004744 Quinolinate synthetase A protein; Region: NadA; cl00420 207559004745 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 207559004746 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 207559004747 dimerization interface [polypeptide binding]; other site 207559004748 active site 207559004749 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 207559004750 MgtE intracellular N domain; Region: MgtE_N; cl15244 207559004751 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 207559004752 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 207559004753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004754 metal binding site [ion binding]; metal-binding site 207559004755 active site 207559004756 I-site; other site 207559004757 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559004758 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 207559004759 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559004760 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 207559004761 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 207559004762 MarC family integral membrane protein; Region: MarC; cl00919 207559004763 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 207559004764 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 207559004765 putative NAD(P) binding site [chemical binding]; other site 207559004766 homodimer interface [polypeptide binding]; other site 207559004767 homotetramer interface [polypeptide binding]; other site 207559004768 active site 207559004769 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559004770 Cysteine-rich domain; Region: CCG; pfam02754 207559004771 Cysteine-rich domain; Region: CCG; pfam02754 207559004772 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559004773 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 207559004774 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 207559004775 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 207559004776 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 207559004777 PilZ domain; Region: PilZ; cl01260 207559004778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 207559004779 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 207559004780 metal binding site [ion binding]; metal-binding site 207559004781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559004782 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1,2-...; Region: GT1_UGDG_like; cd03817 207559004783 putative ADP-binding pocket [chemical binding]; other site 207559004784 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 207559004785 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 207559004786 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559004787 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559004788 Peptidase family M48; Region: Peptidase_M48; cl12018 207559004789 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559004790 Protein of unknown function (DUF511); Region: DUF511; cl01114 207559004791 Restriction endonuclease; Region: Mrr_cat; cl00747 207559004792 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 207559004793 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559004794 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559004795 ATP binding site [chemical binding]; other site 207559004796 putative Mg++ binding site [ion binding]; other site 207559004797 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559004798 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559004799 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559004800 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559004801 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 207559004802 putative active site pocket [active] 207559004803 dimerization interface [polypeptide binding]; other site 207559004804 putative catalytic residue [active] 207559004805 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 207559004806 active site 207559004807 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559004808 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 207559004809 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559004810 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559004811 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 207559004812 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl01910 207559004813 Uncharacterized conserved protein [Function unknown]; Region: COG4104 207559004814 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 207559004815 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 207559004816 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559004817 Phage protein D [General function prediction only]; Region: COG3500; cl12180 207559004818 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 207559004819 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 207559004820 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 207559004821 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 207559004822 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 207559004823 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 207559004824 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559004825 putative active site [active] 207559004826 putative metal binding site [ion binding]; other site 207559004827 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559004828 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559004829 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 207559004830 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 207559004831 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559004832 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559004833 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 207559004834 Dihaem cytochrome c; Region: DHC; pfam09626 207559004835 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 207559004836 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 207559004837 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 207559004838 CASP C terminal; Region: CASP_C; pfam08172 207559004839 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559004840 Phage portal protein; Region: Phage_portal; pfam04860 207559004841 Terminase-like family; Region: Terminase_6; pfam03237 207559004842 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559004843 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 207559004844 DNA binding site [nucleotide binding] 207559004845 Int/Topo IB signature motif; other site 207559004846 active site 207559004847 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 207559004848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559004849 DNA primase, catalytic core; Region: dnaG; TIGR01391 207559004850 CHC2 zinc finger; Region: zf-CHC2; cl02597 207559004851 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559004852 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication...; Region: TOPRIM_primases; cd01029 207559004853 active site 207559004854 metal binding site [ion binding]; metal-binding site 207559004855 interdomain interaction site; other site 207559004856 RecD/TraA family; Region: recD_rel; TIGR01448 207559004857 ERCC4 domain; Region: ERCC4; pfam02732 207559004858 Protein of unknown function (DUF669); Region: DUF669; pfam05037 207559004859 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559004860 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 207559004861 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 207559004862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559004863 LexA repressor; Validated; Region: PRK00215 207559004864 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 207559004865 Catalytic site [active] 207559004866 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 207559004867 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559004868 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559004869 catalytic residues [active] 207559004870 catalytic nucleophile [active] 207559004871 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559004872 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559004873 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559004874 Synaptic Site I dimer interface [polypeptide binding]; other site 207559004875 DNA binding site [nucleotide binding] 207559004876 Recombinase; Region: Recombinase; pfam07508 207559004877 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004879 active site 207559004880 phosphorylation site [posttranslational modification] 207559004881 intermolecular recognition site; other site 207559004882 dimerization interface [polypeptide binding]; other site 207559004883 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559004884 dimer interface [polypeptide binding]; other site 207559004885 phosphorylation site [posttranslational modification] 207559004886 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004887 ATP binding site [chemical binding]; other site 207559004888 Mg2+ binding site [ion binding]; other site 207559004889 G-X-G motif; other site 207559004890 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 207559004891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004892 active site 207559004893 phosphorylation site [posttranslational modification] 207559004894 intermolecular recognition site; other site 207559004895 dimerization interface [polypeptide binding]; other site 207559004896 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559004897 Zn2+ binding site [ion binding]; other site 207559004898 Mg2+ binding site [ion binding]; other site 207559004899 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004900 ATP binding site [chemical binding]; other site 207559004901 Mg2+ binding site [ion binding]; other site 207559004902 G-X-G motif; other site 207559004903 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004905 active site 207559004906 phosphorylation site [posttranslational modification] 207559004907 intermolecular recognition site; other site 207559004908 dimerization interface [polypeptide binding]; other site 207559004909 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559004911 active site 207559004912 phosphorylation site [posttranslational modification] 207559004913 intermolecular recognition site; other site 207559004914 dimerization interface [polypeptide binding]; other site 207559004915 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 207559004916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559004917 Integrase core domain; Region: rve; cl01316 207559004918 PAS domain S-box; Region: sensory_box; TIGR00229 207559004919 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559004920 putative active site [active] 207559004921 heme pocket [chemical binding]; other site 207559004922 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 207559004923 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559004924 dimer interface [polypeptide binding]; other site 207559004925 phosphorylation site [posttranslational modification] 207559004926 Bacitracin resistance protein BacA; Region: BacA; cl00858 207559004927 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 207559004928 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 207559004929 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 207559004930 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 207559004931 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 207559004932 G1 box; other site 207559004933 GTP/Mg2+ binding site [chemical binding]; other site 207559004934 Switch I region; other site 207559004935 G2 box; other site 207559004936 G3 box; other site 207559004937 Switch II region; other site 207559004938 G4 box; other site 207559004939 G5 box; other site 207559004940 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 207559004941 trimer interface [polypeptide binding]; other site 207559004942 active site 207559004943 dimer interface [polypeptide binding]; other site 207559004944 elongation factor P; Validated; Region: PRK00529 207559004945 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 207559004946 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 207559004947 RNA binding site [nucleotide binding]; other site 207559004948 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 207559004949 RNA binding site [nucleotide binding]; other site 207559004950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559004951 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 207559004952 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 207559004953 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 207559004954 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 207559004955 active site 207559004956 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 207559004957 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 207559004958 CPxP motif; other site 207559004959 DsrE/DsrF-like family; Region: DrsE; cl00672 207559004960 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 207559004961 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559004962 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 207559004963 Walker A/P-loop; other site 207559004964 ATP binding site [chemical binding]; other site 207559004965 Q-loop/lid; other site 207559004966 ABC transporter signature motif; other site 207559004967 Walker B; other site 207559004968 D-loop; other site 207559004969 H-loop/switch region; other site 207559004970 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 207559004971 putative acyl-acceptor binding pocket; other site 207559004972 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 207559004973 putative acyl-acceptor binding pocket; other site 207559004974 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 207559004975 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 207559004976 catalytic center binding site [active] 207559004977 ATP binding site [chemical binding]; other site 207559004978 aspartate aminotransferase; Provisional; Region: PRK07681 207559004979 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559004980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559004981 homodimer interface [polypeptide binding]; other site 207559004982 catalytic residue [active] 207559004983 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 207559004984 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 207559004985 Int/Topo IB signature motif; other site 207559004986 active site 207559004987 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559004988 DHH family; Region: DHH; pfam01368 207559004989 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004990 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 207559004991 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 207559004992 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 207559004993 active site 207559004994 NTP binding site [chemical binding]; other site 207559004995 metal binding triad [ion binding]; metal-binding site 207559004996 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559004997 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 207559004998 nucleotide binding site/active site [active] 207559004999 HIT family signature motif; other site 207559005000 catalytic residue [active] 207559005001 tetratricopeptide repeat protein; Provisional; Region: PRK11788 207559005002 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005003 TPR motif; other site 207559005004 binding surface 207559005005 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cl02429 207559005006 binding surface 207559005007 TPR motif; other site 207559005008 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 207559005009 MutS domain I; Region: MutS_I; pfam01624 207559005010 MutS domain II; Region: MutS_II; pfam05188 207559005011 MutS family domain IV; Region: MutS_IV; pfam05190 207559005012 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 207559005013 Walker A/P-loop; other site 207559005014 ATP binding site [chemical binding]; other site 207559005015 Q-loop/lid; other site 207559005016 ABC transporter signature motif; other site 207559005017 Walker B; other site 207559005018 D-loop; other site 207559005019 H-loop/switch region; other site 207559005020 diaminopimelate decarboxylase; Region: lysA; TIGR01048 207559005021 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 207559005022 active site 207559005023 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559005024 substrate binding site [chemical binding]; other site 207559005025 catalytic residues [active] 207559005026 dimer interface [polypeptide binding]; other site 207559005027 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 207559005028 active site 207559005029 dimer interfaces [polypeptide binding]; other site 207559005030 catalytic residues [active] 207559005031 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 207559005032 Predicted transcriptional regulator [Transcription]; Region: COG2932 207559005033 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 207559005034 Catalytic site [active] 207559005035 Protein of unknown function (DUF330); Region: DUF330; cl01135 207559005036 paraquat-inducible protein B; Provisional; Region: PRK10807 207559005037 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559005038 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 207559005039 Walker A/P-loop; other site 207559005040 ATP binding site [chemical binding]; other site 207559005041 Q-loop/lid; other site 207559005042 ABC transporter signature motif; other site 207559005043 Walker B; other site 207559005044 D-loop; other site 207559005045 H-loop/switch region; other site 207559005046 Domain of unknown function DUF140; Region: DUF140; cl00510 207559005047 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559005048 active site 207559005049 Preprotein translocase SecG subunit; Region: SecG; cl09123 207559005050 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 207559005051 substrate binding site [chemical binding]; other site 207559005052 dimer interface [polypeptide binding]; other site 207559005053 catalytic triad [active] 207559005054 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 207559005055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559005056 Coenzyme A binding pocket [chemical binding]; other site 207559005057 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 207559005058 nudix motif; other site 207559005059 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 207559005060 active site 207559005061 dimerization interface [polypeptide binding]; other site 207559005062 rod shape-determining protein MreB; Provisional; Region: PRK13930 207559005063 Cell division protein FtsA; Region: FtsA; cl11496 207559005064 GAF domain; Region: GAF; cl00853 207559005065 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559005066 GAF domain; Region: GAF; cl00853 207559005067 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 207559005068 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 207559005069 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 207559005070 recombination factor protein RarA; Reviewed; Region: PRK13342 207559005071 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005072 Walker A motif; other site 207559005073 ATP binding site [chemical binding]; other site 207559005074 Walker B motif; other site 207559005075 arginine finger; other site 207559005076 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 207559005077 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559005078 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 207559005079 BON domain; Region: BON; cl02771 207559005080 BON domain; Region: BON; cl02771 207559005081 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 207559005082 putative acyl-acceptor binding pocket; other site 207559005083 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559005084 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559005085 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559005086 active site 207559005087 HIGH motif; other site 207559005088 nucleotide binding site [chemical binding]; other site 207559005089 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559005090 active site 207559005091 KMSKS motif; other site 207559005092 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 207559005093 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559005094 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa...; Region: ACD_sHsps_p23-like; cd00298 207559005095 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559005096 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 207559005097 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 207559005098 RNA binding site [nucleotide binding]; other site 207559005099 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 207559005100 RNA binding site [nucleotide binding]; other site 207559005101 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559005102 RNA binding site [nucleotide binding]; other site 207559005103 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559005104 RNA binding site [nucleotide binding]; other site 207559005105 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559005106 RNA binding site [nucleotide binding]; other site 207559005107 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 207559005108 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 207559005109 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 207559005110 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 207559005111 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 207559005112 protein binding site [polypeptide binding]; other site 207559005113 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 207559005114 protein binding site [polypeptide binding]; other site 207559005115 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 207559005116 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005117 Walker A motif; other site 207559005118 ATP binding site [chemical binding]; other site 207559005119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559005120 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 207559005121 feedback inhibition sensing region; other site 207559005122 homohexameric interface [polypeptide binding]; other site 207559005123 nucleotide binding site [chemical binding]; other site 207559005124 N-acetyl-L-glutamate binding site [chemical binding]; other site 207559005125 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559005126 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 207559005127 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559005128 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559005129 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 207559005130 putative active site [active] 207559005131 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 207559005132 precorrin-2 dehydrogenase; Validated; Region: PRK06719 207559005133 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559005134 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 207559005135 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 207559005136 tRNA; other site 207559005137 putative tRNA binding site [nucleotide binding]; other site 207559005138 putative NADP binding site [chemical binding]; other site 207559005139 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 207559005140 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 207559005141 Ligand Binding Site [chemical binding]; other site 207559005142 adenylate kinase; Provisional; Region: PRK14529 207559005143 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 207559005144 AMP-binding site [chemical binding]; other site 207559005145 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 207559005146 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 207559005147 Cation transport protein; Region: TrkH; cl10514 207559005148 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 207559005149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005150 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559005151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005152 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559005153 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 207559005154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559005155 Integrase core domain; Region: rve; cl01316 207559005156 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 207559005157 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 207559005158 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559005159 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 207559005160 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 207559005161 dimer interface [polypeptide binding]; other site 207559005162 motif 1; other site 207559005163 active site 207559005164 motif 2; other site 207559005165 motif 3; other site 207559005166 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 207559005167 Recombination protein O N terminal; Region: RecO_N; pfam11967 207559005168 Recombination protein O C terminal; Region: RecO_C; pfam02565 207559005169 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 207559005170 SurA N-terminal domain; Region: SurA_N; pfam09312 207559005171 periplasmic folding chaperone; Provisional; Region: PRK10788 207559005172 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559005173 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 207559005174 SurA N-terminal domain; Region: SurA_N; pfam09312 207559005175 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 207559005176 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 207559005177 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559005178 ATP binding site [chemical binding]; other site 207559005179 putative Mg++ binding site [ion binding]; other site 207559005180 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559005181 nucleotide binding region [chemical binding]; other site 207559005182 ATP-binding site [chemical binding]; other site 207559005183 TRCF domain; Region: TRCF; pfam03461 207559005184 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 207559005185 putative CheA interaction surface; other site 207559005186 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 207559005187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005188 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 207559005189 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 207559005190 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 207559005191 active site 207559005192 hydrophilic channel; other site 207559005193 dimerization interface [polypeptide binding]; other site 207559005194 catalytic residues [active] 207559005195 active site lid [active] 207559005196 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 207559005197 putative carbohydrate kinase; Provisional; Region: PRK10565 207559005198 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 207559005199 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 207559005200 putative substrate binding site [chemical binding]; other site 207559005201 putative ATP binding site [chemical binding]; other site 207559005202 FOG: CBS domain [General function prediction only]; Region: COG0517 207559005203 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 207559005204 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 207559005205 aspartate kinase; Reviewed; Region: PRK06635 207559005206 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 207559005207 putative nucleotide binding site [chemical binding]; other site 207559005208 putative catalytic residues [active] 207559005209 putative Mg ion binding site [ion binding]; other site 207559005210 putative aspartate binding site [chemical binding]; other site 207559005211 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 207559005212 putative allosteric regulatory site; other site 207559005213 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 207559005214 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 207559005215 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 207559005216 active site 207559005217 catalytic residues [active] 207559005218 metal binding site [ion binding]; metal-binding site 207559005219 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 207559005220 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005221 metal binding site [ion binding]; metal-binding site 207559005222 active site 207559005223 I-site; other site 207559005224 Staphylococcal nuclease homologues; Region: SNc; smart00318 207559005225 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 207559005226 Catalytic site; other site 207559005227 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 207559005228 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 207559005229 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 207559005230 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559005231 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 207559005232 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 207559005233 DNA binding residues [nucleotide binding] 207559005234 DNA primase; Validated; Region: dnaG; PRK05667 207559005235 CHC2 zinc finger; Region: zf-CHC2; cl02597 207559005236 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559005237 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 207559005238 active site 207559005239 metal binding site [ion binding]; metal-binding site 207559005240 interdomain interaction site; other site 207559005241 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 207559005242 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 207559005243 Walker A/P-loop; other site 207559005244 ATP binding site [chemical binding]; other site 207559005245 Q-loop/lid; other site 207559005246 ABC transporter signature motif; other site 207559005247 Walker B; other site 207559005248 D-loop; other site 207559005249 H-loop/switch region; other site 207559005250 Smr domain; Region: Smr; cl02619 207559005251 GatB domain; Region: GatB_Yqey; cl11497 207559005252 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 207559005253 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559005254 IHF dimer interface [polypeptide binding]; other site 207559005255 IHF - DNA interface [nucleotide binding]; other site 207559005256 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559005257 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 207559005258 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is...; Region: GT1_TPS; cd03788 207559005259 active site 207559005260 homotetramer interface [polypeptide binding]; other site 207559005261 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559005262 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 207559005263 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 207559005264 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 207559005265 elongation factor G; Reviewed; Region: PRK12740 207559005266 G1 box; other site 207559005267 putative GEF interaction site [polypeptide binding]; other site 207559005268 GTP/Mg2+ binding site [chemical binding]; other site 207559005269 Switch I region; other site 207559005270 G2 box; other site 207559005271 G3 box; other site 207559005272 Switch II region; other site 207559005273 G4 box; other site 207559005274 G5 box; other site 207559005275 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 207559005276 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 207559005277 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 207559005278 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 207559005279 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559005280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559005281 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559005282 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 207559005283 catalytic residues [active] 207559005284 UGMP family protein; Validated; Region: PRK09604 207559005285 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 207559005286 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7-...; Region: FBPase; cd00354 207559005287 AMP binding site [chemical binding]; other site 207559005288 metal binding site [ion binding]; metal-binding site 207559005289 active site 207559005290 cell division protein DedD; Provisional; Region: PRK11633 207559005291 Sporulation related domain; Region: SPOR; cl10051 207559005292 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005293 TPR motif; other site 207559005294 binding surface 207559005295 Septum formation initiator; Region: DivIC; cl11433 207559005296 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 207559005297 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 207559005298 Walker A motif; other site 207559005299 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559005300 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 207559005301 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559005302 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 207559005303 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 207559005304 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559005305 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 207559005306 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559005307 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 207559005308 pyruvate carboxylase; Reviewed; Region: PRK12999 207559005309 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559005310 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559005311 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 207559005312 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 207559005313 active site 207559005314 catalytic residues [active] 207559005315 metal binding site [ion binding]; metal-binding site 207559005316 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 207559005317 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase...; Region: biotinyl_domain; cd06850 207559005318 carboxyltransferase (CT) interaction site; other site 207559005319 biotinylation site [posttranslational modification]; other site 207559005320 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 207559005321 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559005322 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 207559005323 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 207559005324 metal binding triad [ion binding]; metal-binding site 207559005325 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559005326 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559005327 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559005328 putative glutamate synthase subunit beta; Provisional; Region: PRK12770 207559005329 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559005330 ACT domain-containing protein [General function prediction only]; Region: COG4747 207559005331 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 207559005332 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 207559005333 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 207559005334 hypothetical protein; Reviewed; Region: PRK09588 207559005335 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These...; Region: MopB_3; cd02766 207559005336 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 207559005337 putative [4Fe-4S] binding site [ion binding]; other site 207559005338 putative molybdopterin cofactor binding site [chemical binding]; other site 207559005339 NAD synthetase; Provisional; Region: PRK13981 207559005340 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 207559005341 multimer interface [polypeptide binding]; other site 207559005342 active site 207559005343 catalytic triad [active] 207559005344 protein interface 1 [polypeptide binding]; other site 207559005345 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to...; Region: NAD_synthase; cd00553 207559005346 homodimer interface [polypeptide binding]; other site 207559005347 NAD binding pocket [chemical binding]; other site 207559005348 ATP binding pocket [chemical binding]; other site 207559005349 Mg binding site [ion binding]; other site 207559005350 active-site loop [active] 207559005351 dihydrodipicolinate reductase; Provisional; Region: PRK00048 207559005352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005353 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 207559005354 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 207559005355 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 207559005356 nucleotide binding pocket [chemical binding]; other site 207559005357 K-X-D-G motif; other site 207559005358 catalytic site [active] 207559005359 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 207559005360 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 207559005361 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 207559005362 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559005363 Ion channel; Region: Ion_trans_2; cl11596 207559005364 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 207559005365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005366 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559005367 excinuclease ABC subunit B; Provisional; Region: PRK05298 207559005368 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559005369 ATP binding site [chemical binding]; other site 207559005370 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559005371 nucleotide binding region [chemical binding]; other site 207559005372 ATP-binding site [chemical binding]; other site 207559005373 Ultra-violet resistance protein B; Region: UvrB; pfam12344 207559005374 UvrB/uvrC motif; Region: UVR; pfam02151 207559005375 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 207559005376 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 207559005377 Clp amino terminal domain; Region: Clp_N; pfam02861 207559005378 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005379 Walker A motif; other site 207559005380 ATP binding site [chemical binding]; other site 207559005381 Walker B motif; other site 207559005382 arginine finger; other site 207559005383 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005384 Walker A motif; other site 207559005385 ATP binding site [chemical binding]; other site 207559005386 Walker B motif; other site 207559005387 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559005388 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 207559005389 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 207559005390 putative active site [active] 207559005391 putative metal binding residues [ion binding]; other site 207559005392 signature motif; other site 207559005393 putative triphosphate binding site [ion binding]; other site 207559005394 dimer interface [polypeptide binding]; other site 207559005395 CrcB-like protein; Region: CRCB; cl09114 207559005396 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 207559005397 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 207559005398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559005399 active site 207559005400 phosphorylation site [posttranslational modification] 207559005401 intermolecular recognition site; other site 207559005402 dimerization interface [polypeptide binding]; other site 207559005403 CheB methylesterase; Region: CheB_methylest; pfam01339 207559005404 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559005405 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559005406 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559005407 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 207559005408 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 207559005409 putative binding surface; other site 207559005410 active site 207559005411 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 207559005412 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559005413 ATP binding site [chemical binding]; other site 207559005414 Mg2+ binding site [ion binding]; other site 207559005415 G-X-G motif; other site 207559005416 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 207559005417 Response regulator receiver domain; Region: Response_reg; pfam00072 207559005418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559005419 active site 207559005420 phosphorylation site [posttranslational modification] 207559005421 intermolecular recognition site; other site 207559005422 dimerization interface [polypeptide binding]; other site 207559005423 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559005424 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559005425 DNA repair protein RadA; Provisional; Region: PRK11823 207559005426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559005427 Walker A motif; other site 207559005428 ATP binding site [chemical binding]; other site 207559005429 Walker B motif; other site 207559005430 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 207559005431 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 207559005432 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559005433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559005434 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 207559005435 catalytic residues [active] 207559005436 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 207559005437 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 207559005438 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 207559005439 Pterin binding enzyme; Region: Pterin_bind; pfam00809 207559005440 substrate binding pocket [chemical binding]; other site 207559005441 dimer interface [polypeptide binding]; other site 207559005442 inhibitor binding site; inhibition site 207559005443 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 207559005444 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 207559005445 B12 binding site [chemical binding]; other site 207559005446 cobalt ligand [ion binding]; other site 207559005447 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 207559005448 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 207559005449 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559005450 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 207559005451 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 207559005452 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005453 binding surface 207559005454 TPR motif; other site 207559005455 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005456 binding surface 207559005457 TPR motif; other site 207559005458 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005459 binding surface 207559005460 TPR motif; other site 207559005461 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005462 binding surface 207559005463 TPR motif; other site 207559005464 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 207559005465 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 207559005466 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 207559005467 active site 207559005468 HIGH motif; other site 207559005469 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 207559005470 KMSKS motif; other site 207559005471 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559005472 tRNA binding surface [nucleotide binding]; other site 207559005473 anticodon binding site; other site 207559005474 Peptidase family M48; Region: Peptidase_M48; cl12018 207559005475 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005476 binding surface 207559005477 TPR motif; other site 207559005478 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 207559005479 putative ADP-ribose binding site [chemical binding]; other site 207559005480 putative active site [active] 207559005481 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 207559005482 active site 207559005483 HslU subunit interaction site [polypeptide binding]; other site 207559005484 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 207559005485 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 207559005486 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559005487 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 207559005488 5S rRNA interface [nucleotide binding]; other site 207559005489 CTC domain interface; other site 207559005490 L16 interface [polypeptide binding]; other site 207559005491 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 207559005492 putative active site [active] 207559005493 catalytic residue [active] 207559005494 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 207559005495 transcription termination factor Rho; Provisional; Region: rho; PRK09376 207559005496 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 207559005497 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent...; Region: Rho_CSD; cd04459 207559005498 RNA binding site [nucleotide binding]; other site 207559005499 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 207559005500 multimer interface [polypeptide binding]; other site 207559005501 Walker A motif; other site 207559005502 ATP binding site [chemical binding]; other site 207559005503 Walker B motif; other site 207559005504 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 207559005505 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 207559005506 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 207559005507 putative substrate-binding site; other site 207559005508 nickel binding site [ion binding]; other site 207559005509 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559005510 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 207559005511 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 207559005512 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 207559005513 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 207559005514 putative substrate-binding site; other site 207559005515 nickel binding site [ion binding]; other site 207559005516 HupF/HypC family; Region: HupF_HypC; cl00394 207559005517 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 207559005518 active site 207559005519 catalytic triad [active] 207559005520 oxyanion hole [active] 207559005521 switch loop; other site 207559005522 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 207559005523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559005524 active site 207559005525 HIGH motif; other site 207559005526 nucleotide binding site [chemical binding]; other site 207559005527 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 207559005528 active site 207559005529 KMSKS motif; other site 207559005530 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 207559005531 tRNA binding surface [nucleotide binding]; other site 207559005532 anticodon binding site; other site 207559005533 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 207559005534 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 207559005535 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 207559005536 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559005537 NIL domain; Region: NIL; pfam09383 207559005538 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 207559005539 hypothetical protein; Provisional; Region: PRK13795 207559005540 4Fe-4S binding domain; Region: Fer4; cl02805 207559005541 PilZ domain; Region: PilZ; cl01260 207559005542 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 207559005543 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559005544 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559005545 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 207559005546 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 207559005547 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 207559005548 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559005549 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 207559005550 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559005551 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 207559005552 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 207559005553 Gram-negative bacterial tonB protein; Region: TonB; cl10048 207559005554 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005555 TPR motif; other site 207559005556 binding surface 207559005557 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559005558 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559005559 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559005560 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 207559005561 Peptidase family M48; Region: Peptidase_M48; cl12018 207559005562 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559005563 MatE; Region: MatE; pfam01554 207559005564 Acylphosphatase; Region: Acylphosphatase; cl00551 207559005565 ketol-acid reductoisomerase; Provisional; Region: PRK05479 207559005566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005567 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 207559005568 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 207559005569 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559005570 putative valine binding site [chemical binding]; other site 207559005571 dimer interface [polypeptide binding]; other site 207559005572 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 207559005573 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 207559005574 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 207559005575 PYR/PP interface [polypeptide binding]; other site 207559005576 dimer interface [polypeptide binding]; other site 207559005577 TPP binding site [chemical binding]; other site 207559005578 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 207559005579 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 207559005580 TPP-binding site [chemical binding]; other site 207559005581 dimer interface [polypeptide binding]; other site 207559005582 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 207559005583 DivIVA domain; Region: DivI1A_domain; TIGR03544 207559005584 DivIVA protein; Region: DivIVA; pfam05103 207559005585 YGGT family; Region: YGGT; cl00508 207559005586 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559005587 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559005588 motif II; other site 207559005589 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 207559005590 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559005591 active site residue [active] 207559005592 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 207559005593 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 207559005594 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 207559005595 active site 207559005596 C-terminal domain interface [polypeptide binding]; other site 207559005597 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 207559005598 active site 207559005599 N-terminal domain interface [polypeptide binding]; other site 207559005600 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 207559005601 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 207559005602 NAD binding site [chemical binding]; other site 207559005603 substrate binding site [chemical binding]; other site 207559005604 homodimer interface [polypeptide binding]; other site 207559005605 active site 207559005606 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 207559005607 NADP binding site [chemical binding]; other site 207559005608 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 207559005609 active site 207559005610 putative substrate binding site [chemical binding]; other site 207559005611 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 207559005612 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559005613 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 207559005614 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 207559005615 NAD binding site [chemical binding]; other site 207559005616 homodimer interface [polypeptide binding]; other site 207559005617 active site 207559005618 substrate binding site [chemical binding]; other site 207559005619 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 207559005620 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 207559005621 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559005622 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559005623 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559005624 motif II; other site 207559005625 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559005626 aspartate aminotransferase; Provisional; Region: PRK08361 207559005627 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559005628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559005629 homodimer interface [polypeptide binding]; other site 207559005630 catalytic residue [active] 207559005631 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 207559005632 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 207559005633 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 207559005634 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 207559005635 generic binding surface I; other site 207559005636 generic binding surface II; other site 207559005637 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 207559005638 active site 207559005639 MarC family integral membrane protein; Region: MarC; cl00919 207559005640 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 207559005641 dimer interface [polypeptide binding]; other site 207559005642 FMN binding site [chemical binding]; other site 207559005643 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 207559005644 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 207559005645 TPP-binding site; other site 207559005646 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 207559005647 PYR/PP interface [polypeptide binding]; other site 207559005648 dimer interface [polypeptide binding]; other site 207559005649 TPP binding site [chemical binding]; other site 207559005650 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559005651 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 207559005652 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 207559005653 substrate binding pocket [chemical binding]; other site 207559005654 chain length determination region; other site 207559005655 substrate-Mg2+ binding site; other site 207559005656 catalytic residues [active] 207559005657 aspartate-rich region 1; other site 207559005658 active site lid residues [active] 207559005659 aspartate-rich region 2; other site 207559005660 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 207559005661 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559005662 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 207559005663 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-...; Region: ExoVII_LU_OBF; cd04489 207559005664 generic binding surface II; other site 207559005665 generic binding surface I; other site 207559005666 prolyl-tRNA synthetase; Provisional; Region: PRK09194 207559005667 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 207559005668 dimer interface [polypeptide binding]; other site 207559005669 motif 1; other site 207559005670 active site 207559005671 motif 2; other site 207559005672 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 207559005673 putative deacylase active site [active] 207559005674 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 207559005675 active site 207559005676 motif 3; other site 207559005677 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 207559005678 anticodon binding site; other site 207559005679 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 207559005680 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 207559005681 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 207559005682 intersubunit interface [polypeptide binding]; other site 207559005683 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 207559005684 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 207559005685 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 207559005686 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 207559005687 putative PBP binding regions; other site 207559005688 ABC-ATPase subunit interface; other site 207559005689 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559005690 metal binding site 2 [ion binding]; metal-binding site 207559005691 putative DNA binding helix; other site 207559005692 metal binding site 1 [ion binding]; metal-binding site 207559005693 dimer interface [polypeptide binding]; other site 207559005694 structural Zn2+ binding site [ion binding]; other site 207559005695 DctM-like transporters; Region: DctM; pfam06808 207559005696 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559005697 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559005698 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 207559005699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559005700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559005701 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559005702 Found in ATP-dependent protease La (LON); Region: LON; cl01056 207559005703 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005704 Walker A motif; other site 207559005705 ATP binding site [chemical binding]; other site 207559005706 Walker B motif; other site 207559005707 arginine finger; other site 207559005708 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559005709 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 207559005710 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 207559005711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559005712 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005713 Walker A motif; other site 207559005714 ATP binding site [chemical binding]; other site 207559005715 Walker B motif; other site 207559005716 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559005717 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 207559005718 oligomer interface [polypeptide binding]; other site 207559005719 active site residues [active] 207559005720 trigger factor; Region: tig; TIGR00115 207559005721 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 207559005722 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 207559005723 dimerization interface [polypeptide binding]; other site 207559005724 putative ATP binding site [chemical binding]; other site 207559005725 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 207559005726 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559005727 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 207559005728 putative dimerization interface [polypeptide binding]; other site 207559005729 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 207559005730 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 207559005731 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 207559005732 alphaNTD - beta interaction site [polypeptide binding]; other site 207559005733 alphaNTD homodimer interface [polypeptide binding]; other site 207559005734 alphaNTD - beta' interaction site [polypeptide binding]; other site 207559005735 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 207559005736 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 207559005737 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 207559005738 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 207559005739 RNA binding surface [nucleotide binding]; other site 207559005740 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 207559005741 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 207559005742 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 207559005743 methionine aminopeptidase; Reviewed; Region: PRK07281 207559005744 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 207559005745 active site 207559005746 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 207559005747 SecY translocase; Region: SecY; pfam00344 207559005748 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 207559005749 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins...; Region: Ribosomal_L30; cd01658 207559005750 23S rRNA binding site [nucleotide binding]; other site 207559005751 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 207559005752 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 207559005753 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 207559005754 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 207559005755 23S rRNA interface [nucleotide binding]; other site 207559005756 5S rRNA interface [nucleotide binding]; other site 207559005757 L27 interface [polypeptide binding]; other site 207559005758 L5 interface [polypeptide binding]; other site 207559005759 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 207559005760 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 207559005761 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 207559005762 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 207559005763 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 207559005764 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 207559005765 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 207559005766 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 207559005767 KOW motif; Region: KOW; cl00354 207559005768 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 207559005769 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 207559005770 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where...; Region: Ribosomal_L29_HIP; cd00427 207559005771 23S rRNA interface [nucleotide binding]; other site 207559005772 putative translocon interaction site; other site 207559005773 signal recognition particle (SRP54) interaction site; other site 207559005774 L23 interface [polypeptide binding]; other site 207559005775 trigger factor interaction site; other site 207559005776 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 207559005777 23S rRNA interface [nucleotide binding]; other site 207559005778 5S rRNA interface [nucleotide binding]; other site 207559005779 putative antibiotic binding site [chemical binding]; other site 207559005780 L25 interface [polypeptide binding]; other site 207559005781 L27 interface [polypeptide binding]; other site 207559005782 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 207559005783 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The...; Region: 30S_S3_KH; cd02412 207559005784 G-X-X-G motif; other site 207559005785 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 207559005786 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 207559005787 putative translocon binding site; other site 207559005788 protein-rRNA interface [nucleotide binding]; other site 207559005789 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 207559005790 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 207559005791 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 207559005792 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 207559005793 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 207559005794 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 207559005795 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 207559005796 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 207559005797 elongation factor G; Reviewed; Region: PRK00007 207559005798 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 207559005799 G1 box; other site 207559005800 putative GEF interaction site [polypeptide binding]; other site 207559005801 GTP/Mg2+ binding site [chemical binding]; other site 207559005802 Switch I region; other site 207559005803 G2 box; other site 207559005804 G3 box; other site 207559005805 Switch II region; other site 207559005806 G4 box; other site 207559005807 G5 box; other site 207559005808 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 207559005809 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 207559005810 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 207559005811 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 207559005812 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 207559005813 S17 interaction site [polypeptide binding]; other site 207559005814 S8 interaction site; other site 207559005815 16S rRNA interaction site [nucleotide binding]; other site 207559005816 streptomycin interaction site [chemical binding]; other site 207559005817 23S rRNA interaction site [nucleotide binding]; other site 207559005818 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 207559005819 ATP-sulfurylase; Region: ATPS; cd00517 207559005820 active site 207559005821 HXXH motif; other site 207559005822 flexible loop; other site 207559005823 Protein of unknown function DUF45; Region: DUF45; cl00636 207559005824 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559005825 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559005826 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559005827 4Fe-4S binding domain; Region: Fer4; cl02805 207559005828 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 207559005829 hydrogenase maturation GTPase HydF; Region: GTP_HydF; TIGR03918 207559005830 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 207559005831 G1 box; other site 207559005832 GTP/Mg2+ binding site [chemical binding]; other site 207559005833 Switch I region; other site 207559005834 G2 box; other site 207559005835 Switch II region; other site 207559005836 G3 box; other site 207559005837 G4 box; other site 207559005838 G5 box; other site 207559005839 biotin synthase; Provisional; Region: PRK07094 207559005840 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559005841 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559005842 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 207559005843 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559005844 FeS/SAM binding site; other site 207559005845 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559005846 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 207559005847 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 207559005848 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 207559005849 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559005850 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559005851 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 207559005852 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 207559005853 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 207559005854 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 207559005855 ASRGL1_like domains, a subfamily of the L-Asparaginase type 2-like enzymes. The wider family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. The proenzymes undergo autoproteolytic cleavage before a threonine to generate...; Region: ASRGL1_like; cd04702 207559005856 catalytic nucleophile [active] 207559005857 glycogen branching enzyme; Provisional; Region: PRK12313 207559005858 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 207559005859 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 207559005860 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 207559005861 glycogen synthase; Provisional; Region: glgA; PRK00654 207559005862 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 207559005863 ADP-binding pocket [chemical binding]; other site 207559005864 homodimer interface [polypeptide binding]; other site 207559005865 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 207559005866 nudix motif; other site 207559005867 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 207559005868 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 207559005869 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 207559005870 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559005871 Acyl transferase domain; Region: Acyl_transf_1; cl08282 207559005872 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559005873 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 207559005874 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 207559005875 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 207559005876 active site 207559005877 HIGH motif; other site 207559005878 KMSK motif region; other site 207559005879 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559005880 tRNA binding surface [nucleotide binding]; other site 207559005881 anticodon binding site; other site 207559005882 Sporulation related domain; Region: SPOR; cl10051 207559005883 Domain of unknown function DUF140; Region: DUF140; cl00510 207559005884 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 207559005885 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 207559005886 Walker A/P-loop; other site 207559005887 ATP binding site [chemical binding]; other site 207559005888 Q-loop/lid; other site 207559005889 ABC transporter signature motif; other site 207559005890 Walker B; other site 207559005891 D-loop; other site 207559005892 H-loop/switch region; other site 207559005893 mce related protein; Region: MCE; cl03606 207559005894 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 207559005895 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 207559005896 VacJ like lipoprotein; Region: VacJ; cl01073 207559005897 Cupin domain; Region: Cupin_2; cl09118 207559005898 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 207559005899 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 207559005900 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559005901 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559005902 substrate binding pocket [chemical binding]; other site 207559005903 membrane-bound complex binding site; other site 207559005904 hinge residues; other site 207559005905 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559005906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559005907 dimer interface [polypeptide binding]; other site 207559005908 conserved gate region; other site 207559005909 putative PBP binding loops; other site 207559005910 ABC-ATPase subunit interface; other site 207559005911 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559005912 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559005913 Walker A/P-loop; other site 207559005914 ATP binding site [chemical binding]; other site 207559005915 Q-loop/lid; other site 207559005916 ABC transporter signature motif; other site 207559005917 Walker B; other site 207559005918 D-loop; other site 207559005919 H-loop/switch region; other site 207559005920 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 207559005921 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 207559005922 metal binding triad; other site 207559005923 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 207559005924 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 207559005925 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 207559005926 Nitrogen regulatory protein P-II; Region: P-II; cl00412 207559005927 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 207559005928 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 207559005929 dimer interface [polypeptide binding]; other site 207559005930 catalytic triad [active] 207559005931 peroxidatic and resolving cysteines [active] 207559005932 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 207559005933 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 207559005934 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 207559005935 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin...; Region: S1_Tex; cd05685 207559005936 RNA binding site [nucleotide binding]; other site 207559005937 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 207559005938 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559005939 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 207559005940 non-specific DNA binding site [nucleotide binding]; other site 207559005941 salt bridge; other site 207559005942 sequence-specific DNA binding site [nucleotide binding]; other site 207559005943 Cupin domain; Region: Cupin_2; cl09118 207559005944 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 207559005945 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005946 Walker A motif; other site 207559005947 ATP binding site [chemical binding]; other site 207559005948 Walker B motif; other site 207559005949 arginine finger; other site 207559005950 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 207559005951 DnaA box-binding interface [nucleotide binding]; other site 207559005952 Thymidylate synthase complementing protein; Region: Thy1; cl03630 207559005953 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 207559005954 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559005955 Walker A motif; other site 207559005956 ATP binding site [chemical binding]; other site 207559005957 Walker B motif; other site 207559005958 arginine finger; other site 207559005959 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 207559005960 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 207559005961 RuvA N terminal domain; Region: RuvA_N; pfam01330 207559005962 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 207559005963 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 207559005964 active site 207559005965 putative DNA-binding cleft [nucleotide binding]; other site 207559005966 dimer interface [polypeptide binding]; other site 207559005967 Domain of unknown function DUF28; Region: DUF28; cl00361 207559005968 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 207559005969 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559005970 S-adenosylmethionine binding site [chemical binding]; other site 207559005971 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559005972 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559005973 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 207559005974 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 207559005975 THF binding site; other site 207559005976 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 207559005977 substrate binding site [chemical binding]; other site 207559005978 THF binding site; other site 207559005979 zinc-binding site [ion binding]; other site 207559005980 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 207559005981 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 207559005982 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 207559005983 dimer interface [polypeptide binding]; other site 207559005984 PYR/PP interface [polypeptide binding]; other site 207559005985 TPP binding site [chemical binding]; other site 207559005986 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 207559005987 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 207559005988 TPP-binding site [chemical binding]; other site 207559005989 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 207559005990 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559005991 CoA-ligase; Region: Ligase_CoA; pfam00549 207559005992 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 207559005993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005994 CoA-ligase; Region: Ligase_CoA; pfam00549 207559005995 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 207559005996 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 207559005997 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559005998 binding surface 207559005999 TPR motif; other site 207559006000 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006001 binding surface 207559006002 TPR motif; other site 207559006003 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006004 binding surface 207559006005 TPR motif; other site 207559006006 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 207559006007 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 207559006008 thymidylate kinase; Validated; Region: tmk; PRK00698 207559006009 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 207559006010 TMP-binding site; other site 207559006011 ATP-binding site [chemical binding]; other site 207559006012 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 207559006013 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 207559006014 generic binding surface II; other site 207559006015 generic binding surface I; other site 207559006016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006017 Zn2+ binding site [ion binding]; other site 207559006018 Mg2+ binding site [ion binding]; other site 207559006019 Survival protein SurE; Region: SurE; cl00448 207559006020 hypothetical protein; Provisional; Region: PRK08185 207559006021 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 207559006022 intersubunit interface [polypeptide binding]; other site 207559006023 active site 207559006024 zinc binding site [ion binding]; other site 207559006025 Na+ binding site [ion binding]; other site 207559006026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006027 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 207559006028 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 207559006029 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 207559006030 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559006031 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559006032 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 207559006033 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 207559006034 Domain of unknown function (DUF814); Region: DUF814; pfam05670 207559006035 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559006036 YcaO-like family; Region: YcaO; cl09146 207559006037 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006038 binding surface 207559006039 TPR motif; other site 207559006040 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559006041 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559006042 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006043 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006044 TPR motif; other site 207559006045 binding surface 207559006046 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 207559006047 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 207559006048 MoaE homodimer interface [polypeptide binding]; other site 207559006049 MoaD interaction [polypeptide binding]; other site 207559006050 active site residues [active] 207559006051 trehalose synthase; Region: treS_nterm; TIGR02456 207559006052 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 207559006053 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 207559006054 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559006055 Catalytic site; other site 207559006056 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559006057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006058 active site 207559006059 phosphorylation site [posttranslational modification] 207559006060 intermolecular recognition site; other site 207559006061 dimerization interface [polypeptide binding]; other site 207559006062 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559006063 Walker A motif; other site 207559006064 ATP binding site [chemical binding]; other site 207559006065 Walker B motif; other site 207559006066 arginine finger; other site 207559006067 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 207559006068 SAF domain; Region: SAF; cl00555 207559006069 BON domain; Region: BON; cl02771 207559006070 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 207559006071 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 207559006072 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559006073 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559006074 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 207559006075 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 207559006076 ATP binding site [chemical binding]; other site 207559006077 Walker A motif; other site 207559006078 hexamer interface [polypeptide binding]; other site 207559006079 Walker B motif; other site 207559006080 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 207559006081 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 207559006082 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006083 binding surface 207559006084 TPR motif; other site 207559006085 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006086 binding surface 207559006087 TPR motif; other site 207559006088 Sporulation related domain; Region: SPOR; cl10051 207559006089 Predicted membrane protein (DUF2134); Region: DUF2134; pfam09977 207559006090 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 207559006091 TadE-like protein; Region: TadE; pfam07811 207559006092 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559006093 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559006094 putative active site [active] 207559006095 heme pocket [chemical binding]; other site 207559006096 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559006097 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559006098 putative active site [active] 207559006099 heme pocket [chemical binding]; other site 207559006100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559006101 dimer interface [polypeptide binding]; other site 207559006102 phosphorylation site [posttranslational modification] 207559006103 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559006104 ATP binding site [chemical binding]; other site 207559006105 Mg2+ binding site [ion binding]; other site 207559006106 G-X-G motif; other site 207559006107 Response regulator receiver domain; Region: Response_reg; pfam00072 207559006108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006109 active site 207559006110 phosphorylation site [posttranslational modification] 207559006111 intermolecular recognition site; other site 207559006112 dimerization interface [polypeptide binding]; other site 207559006113 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 207559006114 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 207559006115 Ligand Binding Site [chemical binding]; other site 207559006116 recombinase A; Provisional; Region: recA; PRK09354 207559006117 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 207559006118 hexamer interface [polypeptide binding]; other site 207559006119 Walker A motif; other site 207559006120 ATP binding site [chemical binding]; other site 207559006121 Walker B motif; other site 207559006122 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 207559006123 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 207559006124 motif 1; other site 207559006125 active site 207559006126 motif 2; other site 207559006127 motif 3; other site 207559006128 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 207559006129 DHHA1 domain; Region: DHHA1; pfam02272 207559006130 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 207559006131 metal-binding site [ion binding] 207559006132 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 207559006133 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559006134 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559006135 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 207559006136 hypothetical protein; Provisional; Region: PRK06361 207559006137 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559006138 Protein export membrane protein; Region: SecD_SecF; cl14618 207559006139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006140 active site 207559006141 phosphorylation site [posttranslational modification] 207559006142 intermolecular recognition site; other site 207559006143 dimerization interface [polypeptide binding]; other site 207559006144 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006145 binding surface 207559006146 TPR motif; other site 207559006147 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 207559006148 PhoU domain; Region: PhoU; pfam01895 207559006149 PhoU domain; Region: PhoU; pfam01895 207559006150 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 207559006151 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 207559006152 Walker A/P-loop; other site 207559006153 ATP binding site [chemical binding]; other site 207559006154 Q-loop/lid; other site 207559006155 ABC transporter signature motif; other site 207559006156 Walker B; other site 207559006157 D-loop; other site 207559006158 H-loop/switch region; other site 207559006159 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 207559006160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006161 active site 207559006162 phosphorylation site [posttranslational modification] 207559006163 intermolecular recognition site; other site 207559006164 dimerization interface [polypeptide binding]; other site 207559006165 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 207559006166 DNA binding site [nucleotide binding] 207559006167 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 207559006168 putative active site [active] 207559006169 catalytic site [active] 207559006170 putative substrate binding site [chemical binding]; other site 207559006171 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 207559006172 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 207559006173 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559006174 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 207559006175 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 207559006176 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 207559006177 G1 box; other site 207559006178 GTP/Mg2+ binding site [chemical binding]; other site 207559006179 Switch I region; other site 207559006180 G2 box; other site 207559006181 Switch II region; other site 207559006182 G3 box; other site 207559006183 G4 box; other site 207559006184 G5 box; other site 207559006185 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 207559006186 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 207559006187 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 207559006188 G-X-X-G motif; other site 207559006189 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 207559006190 RxxxH motif; other site 207559006191 membrane protein insertase; Provisional; Region: PRK01318 207559006192 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 207559006193 Domain of unknown function DUF37; Region: DUF37; cl00506 207559006194 Ribonuclease P; Region: Ribonuclease_P; cl00457 207559006195 endonuclease IV; Provisional; Region: PRK01060 207559006196 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-...; Region: AP2Ec; cd00019 207559006197 AP (apurinic/apyrimidinic) site pocket; other site 207559006198 DNA interaction; other site 207559006199 Metal-binding active site; metal-binding site 207559006200 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006201 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006202 YcaO-like family; Region: YcaO; cl09146 207559006203 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559006204 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559006205 Cache domain; Region: Cache_1; pfam02743 207559006206 PAS fold; Region: PAS; pfam00989 207559006207 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559006208 putative active site [active] 207559006209 heme pocket [chemical binding]; other site 207559006210 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559006211 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 207559006212 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559006213 putative active site [active] 207559006214 putative metal binding site [ion binding]; other site 207559006215 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 207559006216 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer...; Region: NADH_nitroreductase; cd02143 207559006217 putative FMN binding site [chemical binding]; other site 207559006218 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 207559006219 Thiamine pyrophosphokinase; Region: TPK; cl09135 207559006220 Domain of unknown function DUF77; Region: DUF77; cl00307 207559006221 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559006222 MatE; Region: MatE; pfam01554 207559006223 MatE; Region: MatE; pfam01554 207559006224 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 207559006225 active site 207559006226 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 207559006227 cytoskeletal protein RodZ; Provisional; Region: PRK10856 207559006228 Rhomboid family; Region: Rhomboid; cl11446 207559006229 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 207559006230 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 207559006231 EamA-like transporter family; Region: EamA; cl01037 207559006232 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 207559006233 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 207559006234 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 207559006235 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 207559006236 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 207559006237 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 207559006238 dimer interface [polypeptide binding]; other site 207559006239 active site 207559006240 CoA binding pocket [chemical binding]; other site 207559006241 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 207559006242 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 207559006243 NAD(P) binding site [chemical binding]; other site 207559006244 homotetramer interface [polypeptide binding]; other site 207559006245 homodimer interface [polypeptide binding]; other site 207559006246 active site 207559006247 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559006248 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 207559006249 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 207559006250 dimer interface [polypeptide binding]; other site 207559006251 active site 207559006252 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 207559006253 dimer interface [polypeptide binding]; other site 207559006254 glycine-pyridoxal phosphate binding site [chemical binding]; other site 207559006255 active site 207559006256 folate binding site [chemical binding]; other site 207559006257 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 207559006258 catalytic motif [active] 207559006259 Zn binding site [ion binding]; other site 207559006260 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 207559006261 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 207559006262 catalytic motif [active] 207559006263 Zn binding site [ion binding]; other site 207559006264 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 207559006265 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 207559006266 Lumazine binding domain; Region: Lum_binding; pfam00677 207559006267 Lumazine binding domain; Region: Lum_binding; pfam00677 207559006268 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 207559006269 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 207559006270 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 207559006271 dimerization interface [polypeptide binding]; other site 207559006272 active site 207559006273 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 207559006274 homopentamer interface [polypeptide binding]; other site 207559006275 active site 207559006276 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 207559006277 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 207559006278 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 207559006279 HIGH motif; other site 207559006280 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559006281 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 207559006282 active site 207559006283 KMSKS motif; other site 207559006284 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 207559006285 tRNA binding surface [nucleotide binding]; other site 207559006286 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 207559006287 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 207559006288 hypothetical protein; Reviewed; Region: PRK00024 207559006289 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 207559006290 MPN+ (JAMM) motif; other site 207559006291 Zinc-binding site [ion binding]; other site 207559006292 Acylphosphatase; Region: Acylphosphatase; cl00551 207559006293 Found in ATP-dependent protease La (LON); Region: LON; cl01056 207559006294 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559006295 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559006296 Walker A motif; other site 207559006297 ATP binding site [chemical binding]; other site 207559006298 Walker B motif; other site 207559006299 arginine finger; other site 207559006300 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559006301 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 207559006302 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559006303 ATP binding site [chemical binding]; other site 207559006304 putative Mg++ binding site [ion binding]; other site 207559006305 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559006306 nucleotide binding region [chemical binding]; other site 207559006307 ATP-binding site [chemical binding]; other site 207559006308 RQC domain; Region: RQC; pfam09382 207559006309 HRDC domain; Region: HRDC; cl02578 207559006310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 207559006311 GAF domain; Region: GAF; cl00853 207559006312 PAS domain S-box; Region: sensory_box; TIGR00229 207559006313 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559006314 putative active site [active] 207559006315 heme pocket [chemical binding]; other site 207559006316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006317 metal binding site [ion binding]; metal-binding site 207559006318 active site 207559006319 I-site; other site 207559006320 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559006321 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 207559006322 Domain of unknown function DUF20; Region: UPF0118; cl00465 207559006323 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 207559006324 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 207559006325 Colicin V production protein; Region: Colicin_V; cl00567 207559006326 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 207559006327 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559006328 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 207559006329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006330 active site 207559006331 phosphorylation site [posttranslational modification] 207559006332 intermolecular recognition site; other site 207559006333 dimerization interface [polypeptide binding]; other site 207559006334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006335 Zn2+ binding site [ion binding]; other site 207559006336 Mg2+ binding site [ion binding]; other site 207559006337 Ubiquitin-like proteins; Region: UBQ; cl00155 207559006338 charged pocket; other site 207559006339 hydrophobic patch; other site 207559006340 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 207559006341 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 207559006342 ATP binding site [chemical binding]; other site 207559006343 substrate interface [chemical binding]; other site 207559006344 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 207559006345 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 207559006346 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 207559006347 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 207559006348 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559006349 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559006350 integral membrane protein MviN; Region: mviN; TIGR01695 207559006351 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559006352 active site 207559006353 motif I; other site 207559006354 motif II; other site 207559006355 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 207559006356 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 207559006357 ring oligomerisation interface [polypeptide binding]; other site 207559006358 ATP/Mg binding site [chemical binding]; other site 207559006359 stacking interactions; other site 207559006360 hinge regions; other site 207559006361 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 207559006362 oligomerisation interface [polypeptide binding]; other site 207559006363 mobile loop; other site 207559006364 roof hairpin; other site 207559006365 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559006366 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559006367 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559006368 ABC transporter ATPase component; Reviewed; Region: PRK11147 207559006369 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 207559006370 Walker A/P-loop; other site 207559006371 ATP binding site [chemical binding]; other site 207559006372 Q-loop/lid; other site 207559006373 ABC transporter signature motif; other site 207559006374 Walker B; other site 207559006375 D-loop; other site 207559006376 H-loop/switch region; other site 207559006377 ABC transporter; Region: ABC_tran_2; pfam12848 207559006378 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 207559006379 Protein of unknown function (DUF520); Region: DUF520; cl00723 207559006380 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (...; Region: DEADc; cd00268 207559006381 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559006382 ATP binding site [chemical binding]; other site 207559006383 Mg++ binding site [ion binding]; other site 207559006384 motif III; other site 207559006385 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559006386 nucleotide binding region [chemical binding]; other site 207559006387 ATP-binding site [chemical binding]; other site 207559006388 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559006389 active site 207559006390 ATP binding site [chemical binding]; other site 207559006391 substrate binding site [chemical binding]; other site 207559006392 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 207559006393 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 207559006394 putative metal binding site [ion binding]; other site 207559006395 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 207559006396 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 207559006397 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 207559006398 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 207559006399 Protein of unknown function (DUF554); Region: DUF554; cl00784 207559006400 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559006401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559006402 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 207559006403 putative effector binding pocket; other site 207559006404 dimerization interface [polypeptide binding]; other site 207559006405 Uncharacterised ArCR, COG2043; Region: DUF169; cl00894 207559006406 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559006407 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 207559006408 UvrD/REP helicase; Region: UvrD-helicase; cl14126 207559006409 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 207559006410 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 207559006411 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559006412 ATP binding site [chemical binding]; other site 207559006413 putative Mg++ binding site [ion binding]; other site 207559006414 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 207559006415 Fic family protein [Function unknown]; Region: COG3177 207559006416 Fic/DOC family; Region: Fic; cl00960 207559006417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559006418 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 207559006419 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559006420 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559006421 Virulence protein [General function prediction only]; Region: COG3943 207559006422 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559006423 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559006424 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559006425 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559006426 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 207559006427 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559006428 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559006429 ATP binding site [chemical binding]; other site 207559006430 putative Mg++ binding site [ion binding]; other site 207559006431 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 207559006432 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 207559006433 non-specific DNA binding site [nucleotide binding]; other site 207559006434 salt bridge; other site 207559006435 sequence-specific DNA binding site [nucleotide binding]; other site 207559006436 hypothetical protein; Provisional; Region: PRK04164 207559006437 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 207559006438 putative transporter; Provisional; Region: PRK11660 207559006439 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559006440 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559006441 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 207559006442 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 207559006443 domain; Region: GreA_GreB_N; pfam03449 207559006444 C-term; Region: GreA_GreB; pfam01272 207559006445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559006446 Integrase core domain; Region: rve; cl01316 207559006447 Protein of unknown function (DUF401); Region: DUF401; cl00830 207559006448 Transglycosylase; Region: Transgly; cl07896 207559006449 PAS fold; Region: PAS_3; pfam08447 207559006450 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 207559006451 PAS domain S-box; Region: sensory_box; TIGR00229 207559006452 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559006453 putative active site [active] 207559006454 heme pocket [chemical binding]; other site 207559006455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006456 metal binding site [ion binding]; metal-binding site 207559006457 active site 207559006458 I-site; other site 207559006459 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559006460 Uncharacterized conserved protein [Function unknown]; Region: COG1284 207559006461 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 207559006462 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 207559006463 Protein of unknown function (DUF1498); Region: DUF1498; cl01576 207559006464 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 207559006465 putative substrate binding site [chemical binding]; other site 207559006466 putative ATP binding site [chemical binding]; other site 207559006467 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 207559006468 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559006469 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559006470 motif II; other site 207559006471 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 207559006472 dimer interface [polypeptide binding]; other site 207559006473 FMN binding site [chemical binding]; other site 207559006474 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 207559006475 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine...; Region: MTHFR; cd00537 207559006476 FAD binding site [chemical binding]; other site 207559006477 argininosuccinate lyase; Provisional; Region: PRK00855 207559006478 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 207559006479 active sites [active] 207559006480 tetramer interface [polypeptide binding]; other site 207559006481 argininosuccinate synthase; Provisional; Region: PLN00200 207559006482 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 207559006483 ANP binding site [chemical binding]; other site 207559006484 Substrate Binding Site II [chemical binding]; other site 207559006485 Substrate Binding Site I [chemical binding]; other site 207559006486 ornithine carbamoyltransferase; Provisional; Region: PRK00779 207559006487 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 207559006488 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 207559006489 Response regulator receiver domain; Region: Response_reg; pfam00072 207559006490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006491 active site 207559006492 phosphorylation site [posttranslational modification] 207559006493 intermolecular recognition site; other site 207559006494 dimerization interface [polypeptide binding]; other site 207559006495 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559006496 active site 207559006497 ApbE family; Region: ApbE; cl00643 207559006498 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559006499 DNA binding residues [nucleotide binding] 207559006500 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559006501 hypothetical protein; Region: PHA01733 207559006502 hypothetical protein; Region: PHA00661 207559006503 hypothetical protein; Region: PHA00661 207559006504 putative protease; Region: PHA00666 207559006505 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 207559006506 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 207559006507 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 207559006508 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559006509 catalytic residue [active] 207559006510 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 207559006511 CHASE4 domain; Region: CHASE4; cl01308 207559006512 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559006513 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559006514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006515 metal binding site [ion binding]; metal-binding site 207559006516 active site 207559006517 I-site; other site 207559006518 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559006519 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 207559006520 peroxiredoxin; Provisional; Region: PRK13189 207559006521 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 207559006522 dimer interface [polypeptide binding]; other site 207559006523 decamer (pentamer of dimers) interface [polypeptide binding]; other site 207559006524 catalytic triad [active] 207559006525 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559006526 active site residue [active] 207559006527 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559006528 diiron binding motif [ion binding]; other site 207559006529 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 207559006530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559006531 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006532 Zn2+ binding site [ion binding]; other site 207559006533 Mg2+ binding site [ion binding]; other site 207559006534 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006535 Zn2+ binding site [ion binding]; other site 207559006536 Mg2+ binding site [ion binding]; other site 207559006537 mechanosensitive channel MscS; Provisional; Region: PRK10334 207559006538 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559006539 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 207559006540 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 207559006541 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559006542 FeS/SAM binding site; other site 207559006543 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 207559006544 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 207559006545 dimer interface [polypeptide binding]; other site 207559006546 active site 207559006547 Schiff base residues; other site 207559006548 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 207559006549 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559006550 FeS/SAM binding site; other site 207559006551 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 207559006552 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559006553 Transcriptional regulators [Transcription]; Region: GntR; COG1802 207559006554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559006555 DNA-binding site [nucleotide binding]; DNA binding site 207559006556 FCD domain; Region: FCD; cl11656 207559006557 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 207559006558 D-cysteine desulfhydrase; Validated; Region: PRK03910 207559006559 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 207559006560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559006561 catalytic residue [active] 207559006562 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 207559006563 homotrimer interaction site [polypeptide binding]; other site 207559006564 putative active site [active] 207559006565 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559006566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559006567 substrate binding pocket [chemical binding]; other site 207559006568 membrane-bound complex binding site; other site 207559006569 hinge residues; other site 207559006570 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559006571 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559006572 Putative exonuclease, RdgC; Region: RdgC; cl01122 207559006573 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559006574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559006575 dimer interface [polypeptide binding]; other site 207559006576 conserved gate region; other site 207559006577 putative PBP binding loops; other site 207559006578 ABC-ATPase subunit interface; other site 207559006579 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 207559006580 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 207559006581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559006582 dimer interface [polypeptide binding]; other site 207559006583 conserved gate region; other site 207559006584 putative PBP binding loops; other site 207559006585 ABC-ATPase subunit interface; other site 207559006586 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 207559006587 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 207559006588 Walker A/P-loop; other site 207559006589 ATP binding site [chemical binding]; other site 207559006590 Q-loop/lid; other site 207559006591 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 207559006592 ABC transporter signature motif; other site 207559006593 Walker B; other site 207559006594 D-loop; other site 207559006595 H-loop/switch region; other site 207559006596 ribonuclease R; Region: RNase_R; TIGR02063 207559006597 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 207559006598 RNB domain; Region: RNB; pfam00773 207559006599 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 207559006600 RNA binding site [nucleotide binding]; other site 207559006601 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 207559006602 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 207559006603 DsrE/DsrF-like family; Region: DrsE; cl00672 207559006604 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 207559006605 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 207559006606 FOG: CBS domain [General function prediction only]; Region: COG0517 207559006607 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cd02205 207559006608 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 207559006609 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559006610 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 207559006611 23S rRNA interface [nucleotide binding]; other site 207559006612 L3 interface [polypeptide binding]; other site 207559006613 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 207559006614 shikimate kinase; Reviewed; Region: aroK; PRK00131 207559006615 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the...; Region: SK; cd00464 207559006616 ADP binding site [chemical binding]; other site 207559006617 magnesium binding site [ion binding]; other site 207559006618 putative shikimate binding site; other site 207559006619 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl11561 207559006620 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 207559006621 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 207559006622 GatB domain; Region: GatB_Yqey; cl11497 207559006623 Protein of unknown function DUF89; Region: DUF89; cl00680 207559006624 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 207559006625 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 207559006626 dimer interface [polypeptide binding]; other site 207559006627 active site 207559006628 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 207559006629 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 207559006630 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 207559006631 domain interfaces; other site 207559006632 active site 207559006633 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 207559006634 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559006635 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 207559006636 Probable Catalytic site [active] 207559006637 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 207559006638 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559006639 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 207559006640 substrate binding site [chemical binding]; other site 207559006641 hinge regions; other site 207559006642 ADP binding site [chemical binding]; other site 207559006643 catalytic site [active] 207559006644 transketolase; Reviewed; Region: PRK12753 207559006645 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 207559006646 TPP-binding site [chemical binding]; other site 207559006647 dimer interface [polypeptide binding]; other site 207559006648 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 207559006649 PYR/PP interface [polypeptide binding]; other site 207559006650 dimer interface [polypeptide binding]; other site 207559006651 TPP binding site [chemical binding]; other site 207559006652 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559006653 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative...; Region: RPE; cd00429 207559006654 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 207559006655 substrate binding site [chemical binding]; other site 207559006656 hexamer interface [polypeptide binding]; other site 207559006657 metal binding site [ion binding]; metal-binding site 207559006658 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 207559006659 DNA binding residues [nucleotide binding] 207559006660 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 207559006661 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 207559006662 putative tRNA-binding site [nucleotide binding]; other site 207559006663 B3/4 domain; Region: B3_4; cl11458 207559006664 tRNA synthetase B5 domain; Region: B5; cl08394 207559006665 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 207559006666 dimer interface [polypeptide binding]; other site 207559006667 motif 1; other site 207559006668 motif 3; other site 207559006669 motif 2; other site 207559006670 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 207559006671 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 207559006672 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 207559006673 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 207559006674 dimer interface [polypeptide binding]; other site 207559006675 motif 1; other site 207559006676 active site 207559006677 motif 2; other site 207559006678 motif 3; other site 207559006679 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 207559006680 23S rRNA binding site [nucleotide binding]; other site 207559006681 L21 binding site [polypeptide binding]; other site 207559006682 L13 binding site [polypeptide binding]; other site 207559006683 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 207559006684 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 207559006685 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 207559006686 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 207559006687 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 207559006688 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 207559006689 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 207559006690 active site 207559006691 dimer interface [polypeptide binding]; other site 207559006692 motif 1; other site 207559006693 motif 2; other site 207559006694 motif 3; other site 207559006695 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 207559006696 anticodon binding site; other site 207559006697 hybrid cluster protein; Provisional; Region: PRK05290 207559006698 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559006699 ACS interaction site; other site 207559006700 CODH interaction site; other site 207559006701 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 207559006702 hybrid metal cluster; other site 207559006703 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 207559006704 4Fe-4S binding domain; Region: Fer4; cl02805 207559006705 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559006706 Ligand Binding Site [chemical binding]; other site 207559006707 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559006708 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 207559006709 ligand binding site [chemical binding]; other site 207559006710 flexible hinge region; other site 207559006711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559006712 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 207559006713 homodimer interaction site [polypeptide binding]; other site 207559006714 cofactor binding site; other site 207559006715 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 207559006716 CoenzymeA binding site [chemical binding]; other site 207559006717 subunit interaction site [polypeptide binding]; other site 207559006718 PHB binding site; other site 207559006719 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 207559006720 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 207559006721 HIGH motif; other site 207559006722 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 207559006723 active site 207559006724 KMSKS motif; other site 207559006725 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 207559006726 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559006727 MatE; Region: MatE; pfam01554 207559006728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559006729 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 207559006730 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559006731 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 207559006732 biotin synthase; Validated; Region: PRK06256 207559006733 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559006734 FeS/SAM binding site; other site 207559006735 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559006736 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 207559006737 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase...; Region: OAT_like; cd00610 207559006738 inhibitor-cofactor binding pocket; inhibition site 207559006739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559006740 catalytic residue [active] 207559006741 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 207559006742 active site 2 [active] 207559006743 active site 1 [active] 207559006744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006745 active site 207559006746 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559006747 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 207559006748 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 207559006749 dimer interface [polypeptide binding]; other site 207559006750 active site 207559006751 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 207559006752 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559006753 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559006754 catalytic residue [active] 207559006755 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: PLN02974 207559006756 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559006757 diaminopimelate decarboxylase; Region: lysA; TIGR01048 207559006758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 207559006759 active site 207559006760 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559006761 substrate binding site [chemical binding]; other site 207559006762 catalytic residues [active] 207559006763 dimer interface [polypeptide binding]; other site 207559006764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559006765 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 207559006766 C-terminal domain interface [polypeptide binding]; other site 207559006767 sugar binding site [chemical binding]; other site 207559006768 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 207559006769 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 207559006770 metal binding site [ion binding]; metal-binding site 207559006771 dimer interface [polypeptide binding]; other site 207559006772 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 207559006773 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 207559006774 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 207559006775 G1 box; other site 207559006776 GTP/Mg2+ binding site [chemical binding]; other site 207559006777 Switch I region; other site 207559006778 G2 box; other site 207559006779 G3 box; other site 207559006780 Switch II region; other site 207559006781 G4 box; other site 207559006782 G5 box; other site 207559006783 Nucleoside recognition; Region: Gate; cl00486 207559006784 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 207559006785 Nucleoside recognition; Region: Gate; cl00486 207559006786 FeoA domain; Region: FeoA; cl00838 207559006787 FeoA domain; Region: FeoA; cl00838 207559006788 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559006789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559006790 active site 207559006791 phosphorylation site [posttranslational modification] 207559006792 intermolecular recognition site; other site 207559006793 dimerization interface [polypeptide binding]; other site 207559006794 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 207559006795 DNA binding residues [nucleotide binding] 207559006796 dimerization interface [polypeptide binding]; other site 207559006797 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559006798 metal binding site 2 [ion binding]; metal-binding site 207559006799 putative DNA binding helix; other site 207559006800 metal binding site 1 [ion binding]; metal-binding site 207559006801 dimer interface [polypeptide binding]; other site 207559006802 structural Zn2+ binding site [ion binding]; other site 207559006803 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 207559006804 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559006805 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559006806 Peptidase M16C associated; Region: M16C_assoc; pfam08367 207559006807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006808 metal binding site [ion binding]; metal-binding site 207559006809 active site 207559006810 I-site; other site 207559006811 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 207559006812 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559006813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559006814 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559006815 ATP binding site [chemical binding]; other site 207559006816 Mg2+ binding site [ion binding]; other site 207559006817 G-X-G motif; other site 207559006818 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 207559006819 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 207559006820 dimer interface [polypeptide binding]; other site 207559006821 substrate binding site [chemical binding]; other site 207559006822 ATP binding site [chemical binding]; other site 207559006823 gamma-glutamyl kinase; Provisional; Region: PRK05429 207559006824 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 207559006825 nucleotide binding site [chemical binding]; other site 207559006826 homotetrameric interface [polypeptide binding]; other site 207559006827 putative phosphate binding site [ion binding]; other site 207559006828 putative allosteric binding site; other site 207559006829 PUA domain; Region: PUA; cl00607 207559006830 GTPase CgtA; Reviewed; Region: obgE; PRK12299 207559006831 GTP1/OBG; Region: GTP1_OBG; pfam01018 207559006832 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 207559006833 G1 box; other site 207559006834 GTP/Mg2+ binding site [chemical binding]; other site 207559006835 Switch I region; other site 207559006836 G2 box; other site 207559006837 G3 box; other site 207559006838 Switch II region; other site 207559006839 G4 box; other site 207559006840 G5 box; other site 207559006841 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 207559006842 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 207559006843 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 207559006844 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 207559006845 substrate binding site [chemical binding]; other site 207559006846 tetramer interface [polypeptide binding]; other site 207559006847 TRAM domain; Region: TRAM; cl01282 207559006848 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 207559006849 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559006850 S-adenosylmethionine binding site [chemical binding]; other site 207559006851 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 207559006852 ATP synthase A chain; Region: ATP-synt_A; cl00413 207559006853 ATP synthase subunit C; Region: ATP-synt_C; cl00466 207559006854 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 207559006855 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 207559006856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006857 Uncharacterized conserved protein [Function unknown]; Region: COG1912 207559006858 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 207559006859 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 207559006860 Flagellar FliJ protein; Region: FliJ; cl09161 207559006861 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 207559006862 MgtE intracellular N domain; Region: MgtE_N; cl15244 207559006863 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 207559006864 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 207559006865 dimerization interface 3.5A [polypeptide binding]; other site 207559006866 active site 207559006867 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 207559006868 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 207559006869 catalytic loop [active] 207559006870 iron binding site [ion binding]; other site 207559006871 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 207559006872 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559006873 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559006874 lipoyl synthase; Provisional; Region: PRK05481 207559006875 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559006876 FeS/SAM binding site; other site 207559006877 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 207559006878 DHH family; Region: DHH; pfam01368 207559006879 DHHA1 domain; Region: DHHA1; pfam02272 207559006880 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559006881 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006882 binding surface 207559006883 TPR motif; other site 207559006884 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 207559006885 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 207559006886 active site 207559006887 dimer interface [polypeptide binding]; other site 207559006888 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 207559006889 catalytic site [active] 207559006890 G-X2-G-X-G-K; other site 207559006891 Domain of unknown function (DUF370); Region: DUF370; cl00898 207559006892 hypothetical protein; Provisional; Region: PRK11820 207559006893 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 207559006894 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 207559006895 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559006896 Radical SAM; Region: Elp3; smart00729 207559006897 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559006898 FeS/SAM binding site; other site 207559006899 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 207559006900 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 207559006901 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 207559006902 NlpC/P60 family; Region: NLPC_P60; cl11438 207559006903 RecD/TraA family; Region: recD_rel; TIGR01448 207559006904 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 207559006905 Tetramer interface [polypeptide binding]; other site 207559006906 Active site [active] 207559006907 FMN-binding site [chemical binding]; other site 207559006908 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559006909 Ligand Binding Site [chemical binding]; other site 207559006910 shikimate kinase; Reviewed; Region: aroK; PRK00131 207559006911 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the...; Region: SK; cd00464 207559006912 ADP binding site [chemical binding]; other site 207559006913 magnesium binding site [ion binding]; other site 207559006914 putative shikimate binding site; other site 207559006915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559006916 putative substrate translocation pore; other site 207559006917 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 207559006918 aspartate aminotransferase; Provisional; Region: PRK07681 207559006919 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559006920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559006921 homodimer interface [polypeptide binding]; other site 207559006922 catalytic residue [active] 207559006923 homoserine dehydrogenase; Provisional; Region: PRK06349 207559006924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006925 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 207559006926 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 207559006927 Sulfatase; Region: Sulfatase; cl10460 207559006928 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 207559006929 MltA specific insert domain; Region: MltA; pfam03562 207559006930 3D domain; Region: 3D; cl01439 207559006931 Cache domain; Region: Cache_2; pfam08269 207559006932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559006933 Cache domain; Region: Cache_2; pfam08269 207559006934 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559006935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559006936 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559006937 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 207559006938 active site 207559006939 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559006940 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 207559006941 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 207559006942 catalytic residues [active] 207559006943 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G_bact; cd04170 207559006944 elongation factor G; Reviewed; Region: PRK12740 207559006945 G1 box; other site 207559006946 putative GEF interaction site [polypeptide binding]; other site 207559006947 GTP/Mg2+ binding site [chemical binding]; other site 207559006948 Switch I region; other site 207559006949 G2 box; other site 207559006950 G3 box; other site 207559006951 Switch II region; other site 207559006952 G4 box; other site 207559006953 G5 box; other site 207559006954 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 207559006955 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 207559006956 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 207559006957 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 207559006958 dimer interface [polypeptide binding]; other site 207559006959 pyridoxal binding site [chemical binding]; other site 207559006960 ATP binding site [chemical binding]; other site 207559006961 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 207559006962 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559006963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559006964 catalytic residue [active] 207559006965 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 207559006966 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 207559006967 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 207559006968 Rubredoxin; Region: Rubredoxin; pfam00301 207559006969 iron binding site [ion binding]; other site 207559006970 MOFRL family; Region: MOFRL; cl01013 207559006971 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559006972 IHF dimer interface [polypeptide binding]; other site 207559006973 IHF - DNA interface [nucleotide binding]; other site 207559006974 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 207559006975 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006976 binding surface 207559006977 TPR motif; other site 207559006978 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 207559006979 PilZ domain; Region: PilZ; cl01260 207559006980 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559006981 TPR motif; other site 207559006982 binding surface 207559006983 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 207559006984 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559006985 ATP binding site [chemical binding]; other site 207559006986 Mg2+ binding site [ion binding]; other site 207559006987 G-X-G motif; other site 207559006988 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559006989 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559006990 Walker A/P-loop; other site 207559006991 ATP binding site [chemical binding]; other site 207559006992 Q-loop/lid; other site 207559006993 ABC transporter signature motif; other site 207559006994 Walker B; other site 207559006995 D-loop; other site 207559006996 H-loop/switch region; other site 207559006997 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559006998 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559006999 substrate binding pocket [chemical binding]; other site 207559007000 membrane-bound complex binding site; other site 207559007001 hinge residues; other site 207559007002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559007003 dimer interface [polypeptide binding]; other site 207559007004 conserved gate region; other site 207559007005 putative PBP binding loops; other site 207559007006 ABC-ATPase subunit interface; other site 207559007007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559007008 dimer interface [polypeptide binding]; other site 207559007009 conserved gate region; other site 207559007010 putative PBP binding loops; other site 207559007011 ABC-ATPase subunit interface; other site 207559007012 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007013 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 207559007014 putative ADP-binding pocket [chemical binding]; other site 207559007015 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 207559007016 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 207559007017 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559007018 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559007019 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007020 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559007021 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559007022 dimerization interface [polypeptide binding]; other site 207559007023 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007024 dimer interface [polypeptide binding]; other site 207559007025 phosphorylation site [posttranslational modification] 207559007026 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007027 ATP binding site [chemical binding]; other site 207559007028 Mg2+ binding site [ion binding]; other site 207559007029 G-X-G motif; other site 207559007030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007031 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007032 active site 207559007033 phosphorylation site [posttranslational modification] 207559007034 intermolecular recognition site; other site 207559007035 dimerization interface [polypeptide binding]; other site 207559007036 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 207559007037 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559007038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559007039 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 207559007040 catalytic residues [active] 207559007041 catalytic nucleophile [active] 207559007042 Recombinase; Region: Recombinase; pfam07508 207559007043 chromosome segregation protein; Provisional; Region: PRK02224 207559007044 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 207559007045 dimerization interface [polypeptide binding]; other site 207559007046 putative DNA binding site [nucleotide binding]; other site 207559007047 putative Zn2+ binding site [ion binding]; other site 207559007048 Predicted permease; Region: DUF318; cl00487 207559007049 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559007050 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 207559007051 catalytic residues [active] 207559007052 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 207559007053 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 207559007054 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559007055 active site residue [active] 207559007056 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 207559007057 active site residue [active] 207559007058 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 207559007059 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559007060 Membrane transport protein; Region: Mem_trans; cl09117 207559007061 Low molecular weight phosphatase family; Region: LMWPc; cl00105 207559007062 Low molecular weight phosphatase family; Region: LMWPc; cd00115 207559007063 Active site [active] 207559007064 BRO family, N-terminal domain; Region: Bro-N; pfam02498 207559007065 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 207559007066 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559007067 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559007068 putative dimer interface [polypeptide binding]; other site 207559007069 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559007070 Restriction endonuclease; Region: Mrr_cat; cl00747 207559007071 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559007072 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559007073 catalytic residues [active] 207559007074 catalytic nucleophile [active] 207559007075 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559007076 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559007077 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559007078 Synaptic Site I dimer interface [polypeptide binding]; other site 207559007079 DNA binding site [nucleotide binding] 207559007080 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559007081 DNA-binding interface [nucleotide binding]; DNA binding site 207559007082 BRO family, N-terminal domain; Region: Bro-N; pfam02498 207559007083 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559007084 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559007085 Catalytic site; other site 207559007086 Mg chelatase-related protein; Region: TIGR00368 207559007087 Uncharacterized conserved protein [Function unknown]; Region: COG1284 207559007088 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 207559007089 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559007090 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007091 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559007092 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cd00522 207559007093 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 207559007094 octamerization interface [polypeptide binding]; other site 207559007095 diferric-oxygen binding site [ion binding]; other site 207559007096 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 207559007097 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 207559007098 Catalytic site [active] 207559007099 GTP-binding protein LepA; Provisional; Region: PRK05433 207559007100 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 207559007101 G1 box; other site 207559007102 putative GEF interaction site [polypeptide binding]; other site 207559007103 GTP/Mg2+ binding site [chemical binding]; other site 207559007104 Switch I region; other site 207559007105 G2 box; other site 207559007106 G3 box; other site 207559007107 Switch II region; other site 207559007108 G4 box; other site 207559007109 G5 box; other site 207559007110 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-...; Region: lepA_II; cd03699 207559007111 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 207559007112 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 207559007113 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 207559007114 dimer interface [polypeptide binding]; other site 207559007115 Low molecular weight phosphatase family; Region: LMWPc; cd00115 207559007116 Active site [active] 207559007117 two-component response regulator; Provisional; Region: PRK14084 207559007118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007119 active site 207559007120 phosphorylation site [posttranslational modification] 207559007121 intermolecular recognition site; other site 207559007122 dimerization interface [polypeptide binding]; other site 207559007123 LytTr DNA-binding domain; Region: LytTR; cl04498 207559007124 acetyl-CoA synthetase; Provisional; Region: PRK00174 207559007125 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 207559007126 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559007127 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007129 active site 207559007130 phosphorylation site [posttranslational modification] 207559007131 intermolecular recognition site; other site 207559007132 dimerization interface [polypeptide binding]; other site 207559007133 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559007134 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007135 Walker A motif; other site 207559007136 ATP binding site [chemical binding]; other site 207559007137 Walker B motif; other site 207559007138 arginine finger; other site 207559007139 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559007140 PAS fold; Region: PAS_4; pfam08448 207559007141 PAS fold; Region: PAS; pfam00989 207559007142 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559007143 putative active site [active] 207559007144 heme pocket [chemical binding]; other site 207559007145 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007146 dimer interface [polypeptide binding]; other site 207559007147 phosphorylation site [posttranslational modification] 207559007148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007149 ATP binding site [chemical binding]; other site 207559007150 Mg2+ binding site [ion binding]; other site 207559007151 G-X-G motif; other site 207559007152 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 207559007153 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 207559007154 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559007155 putative substrate translocation pore; other site 207559007156 AMMECR1; Region: AMMECR1; cl00911 207559007157 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559007158 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 207559007159 ligand binding site [chemical binding]; other site 207559007160 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559007161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007162 dimer interface [polypeptide binding]; other site 207559007163 phosphorylation site [posttranslational modification] 207559007164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007165 ATP binding site [chemical binding]; other site 207559007166 Mg2+ binding site [ion binding]; other site 207559007167 G-X-G motif; other site 207559007168 LysE type translocator; Region: LysE; cl00565 207559007169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559007170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559007171 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 207559007172 substrate binding pocket [chemical binding]; other site 207559007173 dimerization interface [polypeptide binding]; other site 207559007174 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 207559007175 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 207559007176 active site 207559007177 substrate binding site [chemical binding]; other site 207559007178 cosubstrate binding site; other site 207559007179 catalytic site [active] 207559007180 MOSC domain; Region: MOSC; pfam03473 207559007181 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 207559007182 diphthine synthase; Region: dph5; TIGR00522 207559007183 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations...; Region: HemD; cd06578 207559007184 active site 207559007185 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 207559007186 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 207559007187 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 207559007188 HIGH motif; other site 207559007189 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 207559007190 active site 207559007191 KMSKS motif; other site 207559007192 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 207559007193 tRNA binding surface [nucleotide binding]; other site 207559007194 anticodon binding site; other site 207559007195 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 207559007196 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 207559007197 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 207559007198 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 207559007199 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 207559007200 putative active site [active] 207559007201 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 207559007202 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein...; Region: SSP411; cd02955 207559007203 catalytic residues [active] 207559007204 Transposase domain (DUF772); Region: DUF772; cl12084 207559007205 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 207559007206 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 207559007207 EamA-like transporter family; Region: EamA; cl01037 207559007208 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559007209 EamA-like transporter family; Region: EamA; cl01037 207559007210 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559007211 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559007212 PAS fold; Region: PAS_4; pfam08448 207559007213 putative active site [active] 207559007214 heme pocket [chemical binding]; other site 207559007215 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007216 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559007217 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 207559007218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559007219 Integrase core domain; Region: rve; cl01316 207559007220 Domain of unknown function (DUF697); Region: DUF697; cl12064 207559007221 Phage integrase family; Region: Phage_integrase; pfam00589 207559007222 C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 207559007223 DNA binding site [nucleotide binding] 207559007224 Int/Topo IB signature motif; other site 207559007225 active site 207559007226 catalytic residues [active] 207559007227 Fic/DOC family; Region: Fic; cl00960 207559007228 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559007229 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559007230 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007231 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007232 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559007233 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 207559007234 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559007235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 207559007236 Transposase; Region: DDE_Tnp_ISL3; pfam01610 207559007237 putative transposase OrfB; Reviewed; Region: PHA02517 207559007238 Integrase core domain; Region: rve; cl01316 207559007239 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559007240 active site 207559007241 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 207559007242 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 207559007243 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559007244 active site 207559007245 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559007246 S-adenosylmethionine binding site [chemical binding]; other site 207559007247 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 207559007248 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 207559007249 trimer interface [polypeptide binding]; other site 207559007250 active site 207559007251 substrate binding site [chemical binding]; other site 207559007252 CoA binding site [chemical binding]; other site 207559007253 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559007254 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007255 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 207559007256 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559007257 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559007258 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559007259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007260 NAD(P) binding site [chemical binding]; other site 207559007261 active site 207559007262 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 207559007263 active site 207559007264 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007265 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 207559007266 putative ADP-binding pocket [chemical binding]; other site 207559007267 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 207559007268 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 207559007269 active site 207559007270 dimer interface [polypeptide binding]; other site 207559007271 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 207559007272 Ligand Binding Site [chemical binding]; other site 207559007273 Molecular Tunnel; other site 207559007274 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 207559007275 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559007276 S-adenosylmethionine binding site [chemical binding]; other site 207559007277 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 207559007278 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559007279 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 207559007280 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 207559007281 Walker A/P-loop; other site 207559007282 ATP binding site [chemical binding]; other site 207559007283 Q-loop/lid; other site 207559007284 ABC transporter signature motif; other site 207559007285 Walker B; other site 207559007286 D-loop; other site 207559007287 H-loop/switch region; other site 207559007288 ABC-2 type transporter; Region: ABC2_membrane; cl11417 207559007289 Integrase core domain; Region: rve; cl01316 207559007290 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559007291 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 207559007292 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 207559007293 NADP binding site [chemical binding]; other site 207559007294 active site 207559007295 putative substrate binding site [chemical binding]; other site 207559007296 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 207559007297 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 207559007298 NADP-binding site; other site 207559007299 homotetramer interface [polypeptide binding]; other site 207559007300 substrate binding site [chemical binding]; other site 207559007301 homodimer interface [polypeptide binding]; other site 207559007302 active site 207559007303 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 207559007304 RelB antitoxin; Region: RelB; cl01171 207559007305 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559007306 transposase/IS protein; Provisional; Region: PRK09183 207559007307 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007308 Walker A motif; other site 207559007309 ATP binding site [chemical binding]; other site 207559007310 Walker B motif; other site 207559007311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 207559007312 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559007313 Integrase core domain; Region: rve; cl01316 207559007314 Uncharacterised protein family (UPF0156); Region: RHH_2; cl01448 207559007315 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 207559007316 Fic family protein [Function unknown]; Region: COG3177 207559007317 Fic/DOC family; Region: Fic; cl00960 207559007318 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 207559007319 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 207559007320 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 207559007321 metal ion-dependent adhesion site (MIDAS); other site 207559007322 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 207559007323 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 207559007324 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007325 Walker A motif; other site 207559007326 ATP binding site [chemical binding]; other site 207559007327 Walker B motif; other site 207559007328 arginine finger; other site 207559007329 ERF superfamily; Region: ERF; pfam04404 207559007330 Domain of unknown function (DUF927); Region: DUF927; cl12098 207559007331 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559007332 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559007333 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007334 dimer interface [polypeptide binding]; other site 207559007335 phosphorylation site [posttranslational modification] 207559007336 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007337 ATP binding site [chemical binding]; other site 207559007338 Mg2+ binding site [ion binding]; other site 207559007339 G-X-G motif; other site 207559007340 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007342 active site 207559007343 phosphorylation site [posttranslational modification] 207559007344 intermolecular recognition site; other site 207559007345 dimerization interface [polypeptide binding]; other site 207559007346 Cupin domain; Region: Cupin_2; cl09118 207559007347 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 207559007348 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 207559007349 Substrate binding site [chemical binding]; other site 207559007350 Cupin domain; Region: Cupin_2; cl09118 207559007351 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559007352 heme-binding residues [chemical binding]; other site 207559007353 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 207559007354 The MopB_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding (MopB) proteins. This CD is of the PHLH region homologous to the catalytic molybdopterin-binding subunit of MopB homologs; Region: MopB_PHLH; cd02764 207559007355 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound...; Region: MopB_CT_Thiosulfate-R-like; cd02778 207559007356 putative molybdopterin cofactor binding site; other site 207559007357 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559007358 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559007359 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 207559007360 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 207559007361 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 207559007362 Flagellar protein YcgR; Region: YcgR_2; pfam12945 207559007363 PilZ domain; Region: PilZ; cl01260 207559007364 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 207559007365 RNA/DNA hybrid binding site [nucleotide binding]; other site 207559007366 active site 207559007367 Domain of unknown function (DUF477); Region: DUF477; cl01535 207559007368 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 207559007369 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 207559007370 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 207559007371 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559007372 4Fe-4S binding domain; Region: Fer4; cl02805 207559007373 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 207559007374 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 207559007375 active site 207559007376 substrate binding site [chemical binding]; other site 207559007377 metal binding site [ion binding]; metal-binding site 207559007378 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 207559007379 HflK protein; Region: hflK; TIGR01933 207559007380 FtsH protease regulator HflC; Provisional; Region: PRK11029 207559007381 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 207559007382 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 207559007383 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 207559007384 Catalytic site [active] 207559007385 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007386 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559007387 substrate binding pocket [chemical binding]; other site 207559007388 membrane-bound complex binding site; other site 207559007389 hinge residues; other site 207559007390 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007391 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559007392 putative active site [active] 207559007393 heme pocket [chemical binding]; other site 207559007394 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007395 dimer interface [polypeptide binding]; other site 207559007396 phosphorylation site [posttranslational modification] 207559007397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007398 ATP binding site [chemical binding]; other site 207559007399 Mg2+ binding site [ion binding]; other site 207559007400 G-X-G motif; other site 207559007401 PAS fold; Region: PAS_4; pfam08448 207559007402 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007403 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007404 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007405 dimer interface [polypeptide binding]; other site 207559007406 phosphorylation site [posttranslational modification] 207559007407 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007408 ATP binding site [chemical binding]; other site 207559007409 Mg2+ binding site [ion binding]; other site 207559007410 G-X-G motif; other site 207559007411 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559007412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007413 active site 207559007414 phosphorylation site [posttranslational modification] 207559007415 intermolecular recognition site; other site 207559007416 dimerization interface [polypeptide binding]; other site 207559007417 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007418 Walker A motif; other site 207559007419 ATP binding site [chemical binding]; other site 207559007420 Walker B motif; other site 207559007421 arginine finger; other site 207559007422 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559007423 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559007424 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 207559007425 Walker A/P-loop; other site 207559007426 ATP binding site [chemical binding]; other site 207559007427 Q-loop/lid; other site 207559007428 ABC transporter signature motif; other site 207559007429 Walker B; other site 207559007430 D-loop; other site 207559007431 H-loop/switch region; other site 207559007432 BioY family; Region: BioY; cl00560 207559007433 Predicted methyltransferase [General function prediction only]; Region: COG3897 207559007434 nickel responsive regulator; Provisional; Region: PRK04460 207559007435 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 207559007436 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 207559007437 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 207559007438 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 207559007439 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 207559007440 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559007441 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007442 Walker A motif; other site 207559007443 ATP binding site [chemical binding]; other site 207559007444 Walker B motif; other site 207559007445 arginine finger; other site 207559007446 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 207559007447 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 207559007448 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559007449 binding surface 207559007450 TPR motif; other site 207559007451 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 207559007452 putative ligand binding pocket/active site [active] 207559007453 putative metal binding site [ion binding]; other site 207559007454 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559007455 active site 207559007456 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 207559007457 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 207559007458 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 207559007459 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559007460 dihydroorotase; Validated; Region: pyrC; PRK09357 207559007461 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C...; Region: DHOase_IIa; cd01317 207559007462 active site 207559007463 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 207559007464 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559007465 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559007466 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 207559007467 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559007468 FeS/SAM binding site; other site 207559007469 Cache domain; Region: Cache_1; pfam02743 207559007470 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559007471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007472 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559007473 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 207559007474 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 207559007475 active site 207559007476 DNA binding site [nucleotide binding] 207559007477 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 207559007478 Catalytic site [active] 207559007479 Transcriptional regulators [Transcription]; Region: MarR; COG1846 207559007480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559007481 Domain of unknown function DUF; Region: DUF204; pfam02659 207559007482 Domain of unknown function DUF; Region: DUF204; pfam02659 207559007483 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 207559007484 active site clefts [active] 207559007485 zinc binding site [ion binding]; other site 207559007486 dimer interface [polypeptide binding]; other site 207559007487 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 207559007488 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 207559007489 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559007490 S-adenosylmethionine binding site [chemical binding]; other site 207559007491 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 207559007492 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 207559007493 peptide chain release factor 1; Validated; Region: prfA; PRK00591 207559007494 RF-1 domain; Region: RF-1; cl02875 207559007495 RF-1 domain; Region: RF-1; cl02875 207559007496 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 207559007497 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559007498 S-adenosylmethionine binding site [chemical binding]; other site 207559007499 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 207559007500 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 207559007501 putative transposase OrfB; Reviewed; Region: PHA02517 207559007502 Integrase core domain; Region: rve; cl01316 207559007503 elongation factor Tu; Reviewed; Region: PRK00049 207559007504 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 207559007505 G1 box; other site 207559007506 GEF interaction site [polypeptide binding]; other site 207559007507 GTP/Mg2+ binding site [chemical binding]; other site 207559007508 Switch I region; other site 207559007509 G2 box; other site 207559007510 G3 box; other site 207559007511 Switch II region; other site 207559007512 G4 box; other site 207559007513 G5 box; other site 207559007514 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 207559007515 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts)...; Region: EFTU_III; cd03707 207559007516 Antibiotic Binding Site [chemical binding]; other site 207559007517 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 207559007518 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 207559007519 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 207559007520 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 207559007521 putative homodimer interface [polypeptide binding]; other site 207559007522 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 207559007523 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 207559007524 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 207559007525 23S rRNA interface [nucleotide binding]; other site 207559007526 L7/L12 interface [polypeptide binding]; other site 207559007527 putative thiostrepton binding site; other site 207559007528 L25 interface [polypeptide binding]; other site 207559007529 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that...; Region: Ribosomal_L1; cd00403 207559007530 mRNA/rRNA interface [nucleotide binding]; other site 207559007531 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11...; Region: Ribosomal_L10; cd05797 207559007532 23S rRNA interface [nucleotide binding]; other site 207559007533 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 207559007534 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 207559007535 core dimer interface [polypeptide binding]; other site 207559007536 peripheral dimer interface [polypeptide binding]; other site 207559007537 L10 interface [polypeptide binding]; other site 207559007538 L11 interface [polypeptide binding]; other site 207559007539 putative EF-Tu interaction site [polypeptide binding]; other site 207559007540 putative EF-G interaction site [polypeptide binding]; other site 207559007541 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 207559007542 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 207559007543 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 207559007544 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 207559007545 RPB11 interaction site [polypeptide binding]; other site 207559007546 RPB12 interaction site [polypeptide binding]; other site 207559007547 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 207559007548 RPB3 interaction site [polypeptide binding]; other site 207559007549 RPB1 interaction site [polypeptide binding]; other site 207559007550 RPB11 interaction site [polypeptide binding]; other site 207559007551 RPB10 interaction site [polypeptide binding]; other site 207559007552 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 207559007553 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 207559007554 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 207559007555 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 207559007556 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 207559007557 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 207559007558 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 207559007559 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 207559007560 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 207559007561 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 207559007562 DNA binding site [nucleotide binding] 207559007563 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 207559007564 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559007565 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559007566 dimerization interface [polypeptide binding]; other site 207559007567 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007568 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007569 dimer interface [polypeptide binding]; other site 207559007570 phosphorylation site [posttranslational modification] 207559007571 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007572 ATP binding site [chemical binding]; other site 207559007573 Mg2+ binding site [ion binding]; other site 207559007574 G-X-G motif; other site 207559007575 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 207559007576 TIGR01777 family protein; Region: yfcH 207559007577 putative NAD(P) binding site [chemical binding]; other site 207559007578 putative active site [active] 207559007579 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007581 active site 207559007582 phosphorylation site [posttranslational modification] 207559007583 intermolecular recognition site; other site 207559007584 dimerization interface [polypeptide binding]; other site 207559007585 PAS domain S-box; Region: sensory_box; TIGR00229 207559007586 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007588 Zn2+ binding site [ion binding]; other site 207559007589 Mg2+ binding site [ion binding]; other site 207559007590 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559007591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007592 active site 207559007593 phosphorylation site [posttranslational modification] 207559007594 intermolecular recognition site; other site 207559007595 dimerization interface [polypeptide binding]; other site 207559007596 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007597 Walker A motif; other site 207559007598 ATP binding site [chemical binding]; other site 207559007599 Walker B motif; other site 207559007600 arginine finger; other site 207559007601 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559007602 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 207559007603 catalytic core [active] 207559007604 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 207559007605 Ion transport protein; Region: Ion_trans; pfam00520 207559007606 Ion channel; Region: Ion_trans_2; cl11596 207559007607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007608 active site 207559007609 phosphorylation site [posttranslational modification] 207559007610 intermolecular recognition site; other site 207559007611 dimerization interface [polypeptide binding]; other site 207559007612 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559007613 binding surface 207559007614 TPR motif; other site 207559007615 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559007616 binding surface 207559007617 TPR motif; other site 207559007618 LOW PSII ACCUMULATION1; Provisional; Region: LPA1; PLN03098 207559007619 Domain of unknown function DUF39; Region: DUF39; cl14897 207559007620 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 207559007621 Ligand Binding Site [chemical binding]; other site 207559007622 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 207559007623 adenylosuccinate lyase; Provisional; Region: PRK07492 207559007624 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 207559007625 tetramer interface [polypeptide binding]; other site 207559007626 active site 207559007627 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 207559007628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 207559007629 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 207559007630 ATP cone domain; Region: ATP-cone; pfam03477 207559007631 Class III ribonucleotide reductase; Region: RNR_III; cd01675 207559007632 effector binding site; other site 207559007633 active site 207559007634 Zn binding site [ion binding]; other site 207559007635 glycine loop; other site 207559007636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559007637 EamA-like transporter family; Region: EamA; cl01037 207559007638 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559007639 EamA-like transporter family; Region: EamA; cl01037 207559007640 Cache domain; Region: Cache_1; pfam02743 207559007641 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007642 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559007643 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559007644 Ferredoxin [Energy production and conversion]; Region: COG1146 207559007645 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer...; Region: NADH_nitroreductase; cd02143 207559007646 putative FMN binding site [chemical binding]; other site 207559007647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007648 metal binding site [ion binding]; metal-binding site 207559007649 active site 207559007650 I-site; other site 207559007651 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559007652 hypothetical protein; Provisional; Region: PRK13795 207559007653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559007654 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559007655 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 207559007656 ligand binding site [chemical binding]; other site 207559007657 flexible hinge region; other site 207559007658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559007659 putative switch regulator; other site 207559007660 non-specific DNA interactions [nucleotide binding]; other site 207559007661 DNA binding site [nucleotide binding] 207559007662 sequence specific DNA binding site [nucleotide binding]; other site 207559007663 putative cAMP binding site [chemical binding]; other site 207559007664 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 207559007665 ACS interaction site; other site 207559007666 CODH interaction site; other site 207559007667 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 207559007668 cubane metal cluster (B-cluster) [ion binding]; other site 207559007669 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 207559007670 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 207559007671 P-loop; other site 207559007672 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559007673 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 207559007674 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 207559007675 M28, and M42; Region: Zinc_peptidase_like; cl14876 207559007676 metal binding site [ion binding]; metal-binding site 207559007677 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 207559007678 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 207559007679 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559007680 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559007681 Domain of unknown function DUF21; Region: DUF21; pfam01595 207559007682 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 207559007683 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 207559007684 Transporter associated domain; Region: CorC_HlyC; pfam03471 207559007685 PAS domain S-box; Region: sensory_box; TIGR00229 207559007686 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007687 PAS domain S-box; Region: sensory_box; TIGR00229 207559007688 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007689 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007690 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559007691 dimer interface [polypeptide binding]; other site 207559007692 phosphorylation site [posttranslational modification] 207559007693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007694 ATP binding site [chemical binding]; other site 207559007695 Mg2+ binding site [ion binding]; other site 207559007696 G-X-G motif; other site 207559007697 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559007698 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559007699 dimer interface [polypeptide binding]; other site 207559007700 active site 207559007701 glycine loop; other site 207559007702 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559007703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007704 active site 207559007705 phosphorylation site [posttranslational modification] 207559007706 intermolecular recognition site; other site 207559007707 dimerization interface [polypeptide binding]; other site 207559007708 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007709 Walker A motif; other site 207559007710 ATP binding site [chemical binding]; other site 207559007711 Walker B motif; other site 207559007712 arginine finger; other site 207559007713 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 207559007714 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559007715 FeS/SAM binding site; other site 207559007716 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 207559007717 D-alanyl-alanine synthetase A; Provisional; Region: PRK14571 207559007718 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559007719 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 207559007720 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559007721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559007722 Coenzyme A binding pocket [chemical binding]; other site 207559007723 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 207559007724 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 207559007725 PAS domain S-box; Region: sensory_box; TIGR00229 207559007726 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559007727 putative active site [active] 207559007728 heme pocket [chemical binding]; other site 207559007729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007730 metal binding site [ion binding]; metal-binding site 207559007731 active site 207559007732 I-site; other site 207559007733 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559007734 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007735 Walker A motif; other site 207559007736 ATP binding site [chemical binding]; other site 207559007737 Walker B motif; other site 207559007738 arginine finger; other site 207559007739 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559007740 D-galactonate transporter; Region: 2A0114; TIGR00893 207559007741 putative substrate translocation pore; other site 207559007742 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559007743 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559007744 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 207559007745 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559007746 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 207559007747 selenocysteine synthase; Provisional; Region: PRK04311 207559007748 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 207559007749 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559007750 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559007751 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 207559007752 NAD binding site [chemical binding]; other site 207559007753 putative substrate binding site 2 [chemical binding]; other site 207559007754 putative substrate binding site 1 [chemical binding]; other site 207559007755 active site 207559007756 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 207559007757 oligomer interface [polypeptide binding]; other site 207559007758 putative active site [active] 207559007759 metal binding site [ion binding]; metal-binding site 207559007760 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 207559007761 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 207559007762 putative active site [active] 207559007763 metal binding site [ion binding]; metal-binding site 207559007764 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007765 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 207559007766 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 207559007767 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559007768 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559007769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007770 active site 207559007771 phosphorylation site [posttranslational modification] 207559007772 intermolecular recognition site; other site 207559007773 dimerization interface [polypeptide binding]; other site 207559007774 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559007775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559007776 dimer interface [polypeptide binding]; other site 207559007777 conserved gate region; other site 207559007778 putative PBP binding loops; other site 207559007779 ABC-ATPase subunit interface; other site 207559007780 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559007781 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007782 substrate binding pocket [chemical binding]; other site 207559007783 membrane-bound complex binding site; other site 207559007784 hinge residues; other site 207559007785 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559007786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559007787 dimer interface [polypeptide binding]; other site 207559007788 conserved gate region; other site 207559007789 putative PBP binding loops; other site 207559007790 ABC-ATPase subunit interface; other site 207559007791 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 207559007792 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559007793 PAS fold; Region: PAS_4; pfam08448 207559007794 putative active site [active] 207559007795 heme pocket [chemical binding]; other site 207559007796 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007797 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559007798 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007799 Zn2+ binding site [ion binding]; other site 207559007800 Mg2+ binding site [ion binding]; other site 207559007801 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 207559007802 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007803 Zn2+ binding site [ion binding]; other site 207559007804 Mg2+ binding site [ion binding]; other site 207559007805 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559007806 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 207559007807 trimerization site [polypeptide binding]; other site 207559007808 active site 207559007809 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 207559007810 NifU-like domain; Region: NifU; cl00484 207559007811 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 207559007812 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559007813 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559007814 catalytic residue [active] 207559007815 cysteine synthases; Region: cysKM; TIGR01136 207559007816 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine...; Region: CBS_like; cd01561 207559007817 dimer interface [polypeptide binding]; other site 207559007818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559007819 catalytic residue [active] 207559007820 serine O-acetyltransferase; Region: cysE; TIGR01172 207559007821 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of L-...; Region: LbH_SAT; cd03354 207559007822 trimer interface [polypeptide binding]; other site 207559007823 active site 207559007824 substrate binding site [chemical binding]; other site 207559007825 CoA binding site [chemical binding]; other site 207559007826 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 207559007827 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 207559007828 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 207559007829 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559007830 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 207559007831 B12 binding site [chemical binding]; other site 207559007832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007833 metal binding site [ion binding]; metal-binding site 207559007834 active site 207559007835 I-site; other site 207559007836 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 207559007837 homodimer interface [polypeptide binding]; other site 207559007838 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 207559007839 active site pocket [active] 207559007840 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 207559007841 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 207559007842 FMN binding site [chemical binding]; other site 207559007843 active site 207559007844 catalytic residues [active] 207559007845 substrate binding site [chemical binding]; other site 207559007846 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559007847 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 207559007848 active site 207559007849 metal binding site [ion binding]; metal-binding site 207559007850 homotetramer interface [polypeptide binding]; other site 207559007851 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559007852 putative dimer interface [polypeptide binding]; other site 207559007853 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559007854 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559007855 putative dimer interface [polypeptide binding]; other site 207559007856 Trm112p-like protein; Region: Trm112p; cl01066 207559007857 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 207559007858 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 207559007859 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 207559007860 Peptidase family U32; Region: Peptidase_U32; cl03113 207559007861 PAS domain S-box; Region: sensory_box; TIGR00229 207559007862 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007863 sensory histidine kinase CreC; Provisional; Region: PRK11100 207559007864 histidine kinase; Provisional; Region: PRK13557 207559007865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007866 active site 207559007867 phosphorylation site [posttranslational modification] 207559007868 intermolecular recognition site; other site 207559007869 dimerization interface [polypeptide binding]; other site 207559007870 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007872 active site 207559007873 phosphorylation site [posttranslational modification] 207559007874 intermolecular recognition site; other site 207559007875 dimerization interface [polypeptide binding]; other site 207559007876 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 207559007877 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559007878 Walker A motif; other site 207559007879 ATP binding site [chemical binding]; other site 207559007880 Walker B motif; other site 207559007881 arginine finger; other site 207559007882 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 207559007883 DNA binding site [nucleotide binding] 207559007884 active site 207559007885 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559007886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559007887 active site 207559007888 phosphorylation site [posttranslational modification] 207559007889 intermolecular recognition site; other site 207559007890 dimerization interface [polypeptide binding]; other site 207559007891 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007892 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 207559007893 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 207559007894 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 207559007895 active site 207559007896 C-terminal domain interface [polypeptide binding]; other site 207559007897 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 207559007898 active site 207559007899 N-terminal domain interface [polypeptide binding]; other site 207559007900 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 207559007901 dimer interface [polypeptide binding]; other site 207559007902 putative PBP binding regions; other site 207559007903 ABC-ATPase subunit interface; other site 207559007904 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 207559007905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559007906 Walker A/P-loop; other site 207559007907 ATP binding site [chemical binding]; other site 207559007908 Q-loop/lid; other site 207559007909 ABC transporter signature motif; other site 207559007910 Walker B; other site 207559007911 D-loop; other site 207559007912 H-loop/switch region; other site 207559007913 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 207559007914 putative ligand binding residues [chemical binding]; other site 207559007915 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 207559007916 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 207559007917 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 207559007918 Protein of unknown function DUF124; Region: DUF124; cl00884 207559007919 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 207559007920 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 207559007921 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559007922 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559007923 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559007924 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007925 PAS domain S-box; Region: sensory_box; TIGR00229 207559007926 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559007927 putative active site [active] 207559007928 heme pocket [chemical binding]; other site 207559007929 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559007930 PAS fold; Region: PAS_3; pfam08447 207559007931 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559007932 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007933 ATP binding site [chemical binding]; other site 207559007934 Mg2+ binding site [ion binding]; other site 207559007935 G-X-G motif; other site 207559007936 histidine kinase; Provisional; Region: PRK13557 207559007937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 207559007938 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 207559007939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007940 Zn2+ binding site [ion binding]; other site 207559007941 Mg2+ binding site [ion binding]; other site 207559007942 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559007943 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 207559007944 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559007945 GTP binding site [chemical binding]; other site 207559007946 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 207559007947 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559007948 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 207559007949 NAD(P) binding site [chemical binding]; other site 207559007950 catalytic residues [active] 207559007951 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 207559007952 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 207559007953 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 207559007954 Transglycosylase; Region: Transgly; cl07896 207559007955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 207559007956 conserved hypothetical protein; Region: TIGR02231 207559007957 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559007958 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 207559007959 active site 207559007960 NAD binding site [chemical binding]; other site 207559007961 metal binding site [ion binding]; metal-binding site 207559007962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559007963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559007964 Acetokinase family; Region: Acetate_kinase; cl01029 207559007965 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 207559007966 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 207559007967 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559007968 putative valine binding site [chemical binding]; other site 207559007969 dimer interface [polypeptide binding]; other site 207559007970 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 207559007971 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559007972 active site residue [active] 207559007973 Adenosylhomocysteinase; Provisional; Region: PTZ00075 207559007974 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 207559007975 oligomerization interface [polypeptide binding]; other site 207559007976 active site 207559007977 NAD+ binding site [chemical binding]; other site 207559007978 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 207559007979 dimerization interface [polypeptide binding]; other site 207559007980 putative DNA binding site [nucleotide binding]; other site 207559007981 putative Zn2+ binding site [ion binding]; other site 207559007982 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 207559007983 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559007984 S-adenosylmethionine binding site [chemical binding]; other site 207559007985 Protein of unknown function (DUF721); Region: DUF721; cl02324 207559007986 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 207559007987 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 207559007988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559007989 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 207559007990 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 207559007991 Cupin domain; Region: Cupin_2; cl09118 207559007992 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559007993 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559007994 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559007995 Domain of unknown function (DUF369); Region: DUF369; cl00950 207559007996 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559007997 substrate binding pocket [chemical binding]; other site 207559007998 membrane-bound complex binding site; other site 207559007999 hinge residues; other site 207559008000 FliW protein; Region: FliW; cl00740 207559008001 Global regulator protein family; Region: CsrA; cl00670 207559008002 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559008003 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559008004 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 207559008005 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 207559008006 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 207559008007 FlgN protein; Region: FlgN; cl09176 207559008008 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 207559008009 Rod binding protein; Region: Rod-binding; cl01626 207559008010 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 207559008011 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559008012 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 207559008013 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 207559008014 Flagellar L-ring protein; Region: FlgH; cl00905 207559008015 SAF domain; Region: SAF; cl00555 207559008016 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 207559008017 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 207559008018 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 207559008019 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 207559008020 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 207559008021 ribosome maturation protein RimP; Reviewed; Region: PRK00092 207559008022 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 207559008023 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 207559008024 Sm1 motif; other site 207559008025 D3 - B interaction site; other site 207559008026 D1 - D2 interaction site; other site 207559008027 Hfq - Hfq interaction site; other site 207559008028 RNA binding pocket [nucleotide binding]; other site 207559008029 Sm2 motif; other site 207559008030 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 207559008031 NusA N-terminal domain; Region: NusA_N; pfam08529 207559008032 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 207559008033 RNA binding site [nucleotide binding]; other site 207559008034 homodimer interface [polypeptide binding]; other site 207559008035 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 207559008036 G-X-X-G motif; other site 207559008037 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 207559008038 translation initiation factor IF-2; Region: IF-2; TIGR00487 207559008039 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 207559008040 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 207559008041 G1 box; other site 207559008042 putative GEF interaction site [polypeptide binding]; other site 207559008043 GTP/Mg2+ binding site [chemical binding]; other site 207559008044 Switch I region; other site 207559008045 G2 box; other site 207559008046 G3 box; other site 207559008047 Switch II region; other site 207559008048 G4 box; other site 207559008049 G5 box; other site 207559008050 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the...; Region: IF2_mtIF2_II; cd03702 207559008051 Translation-initiation factor 2; Region: IF-2; pfam11987 207559008052 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation...; Region: mtIF2_IVc; cd03692 207559008053 Protein of unknown function (DUF503); Region: DUF503; cl00669 207559008054 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559008055 DHH family; Region: DHH; pfam01368 207559008056 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 207559008057 RNA binding site [nucleotide binding]; other site 207559008058 active site 207559008059 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole...; Region: Ribosomal_S15p_S13e; cd00353 207559008060 16S/18S rRNA binding site [nucleotide binding]; other site 207559008061 S13e-L30e interaction site [polypeptide binding]; other site 207559008062 25S rRNA binding site [nucleotide binding]; other site 207559008063 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 207559008064 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 207559008065 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 207559008066 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 207559008067 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 207559008068 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 207559008069 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 207559008070 putative nucleic acid binding region [nucleotide binding]; other site 207559008071 G-X-X-G motif; other site 207559008072 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA...; Region: S1_PNPase; cd04472 207559008073 RNA binding site [nucleotide binding]; other site 207559008074 domain interface; other site 207559008075 GTPase RsgA; Reviewed; Region: PRK01889 207559008076 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 207559008077 GTPase/OB domain interface [polypeptide binding]; other site 207559008078 GTPase/Zn-binding domain interface [polypeptide binding]; other site 207559008079 GTP/Mg2+ binding site [chemical binding]; other site 207559008080 G4 box; other site 207559008081 G5 box; other site 207559008082 G1 box; other site 207559008083 Switch I region; other site 207559008084 G2 box; other site 207559008085 G3 box; other site 207559008086 Switch II region; other site 207559008087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559008088 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of...; Region: SelB; cd04171 207559008089 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 207559008090 G1 box; other site 207559008091 putative GEF interaction site [polypeptide binding]; other site 207559008092 GTP/Mg2+ binding site [chemical binding]; other site 207559008093 Switch I region; other site 207559008094 G2 box; other site 207559008095 G3 box; other site 207559008096 Switch II region; other site 207559008097 G4 box; other site 207559008098 G5 box; other site 207559008099 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires...; Region: selB_II; cd03696 207559008100 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 207559008101 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 207559008102 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 207559008103 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559008104 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 207559008105 peptide binding site [polypeptide binding]; other site 207559008106 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 207559008107 AzlC protein; Region: AzlC; cl00570 207559008108 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 207559008109 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 207559008110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008111 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 207559008112 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 207559008113 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559008114 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 207559008115 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase...; Region: OAT_like; cd00610 207559008116 inhibitor-cofactor binding pocket; inhibition site 207559008117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559008118 catalytic residue [active] 207559008119 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 207559008120 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 207559008121 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 207559008122 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 207559008123 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 207559008124 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 207559008125 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008126 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 207559008127 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 207559008128 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 207559008129 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 207559008130 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 207559008131 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 207559008132 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 207559008133 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 207559008134 substrate binding pocket [chemical binding]; other site 207559008135 chain length determination region; other site 207559008136 substrate-Mg2+ binding site; other site 207559008137 catalytic residues [active] 207559008138 aspartate-rich region 1; other site 207559008139 active site lid residues [active] 207559008140 aspartate-rich region 2; other site 207559008141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559008142 PAS fold; Region: PAS; pfam00989 207559008143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008144 metal binding site [ion binding]; metal-binding site 207559008145 active site 207559008146 I-site; other site 207559008147 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 207559008148 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat1; cd02203 207559008149 dimerization interface [polypeptide binding]; other site 207559008150 ATP binding site [chemical binding]; other site 207559008151 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat2; cd02204 207559008152 dimerization interface [polypeptide binding]; other site 207559008153 ATP binding site [chemical binding]; other site 207559008154 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 207559008155 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small...; Region: DSRD; cd00974 207559008156 non-heme iron binding site [ion binding]; other site 207559008157 dimer interface [polypeptide binding]; other site 207559008158 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion...; Region: SORL_Dfx_classI; cd03171 207559008159 non-heme iron binding site [ion binding]; other site 207559008160 dimer interface [polypeptide binding]; other site 207559008161 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 207559008162 Rubredoxin; Region: Rubredoxin; pfam00301 207559008163 iron binding site [ion binding]; other site 207559008164 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 207559008165 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559008166 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559008167 PAS domain S-box; Region: sensory_box; TIGR00229 207559008168 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008169 putative active site [active] 207559008170 heme pocket [chemical binding]; other site 207559008171 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 207559008172 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008173 Walker A motif; other site 207559008174 ATP binding site [chemical binding]; other site 207559008175 Walker B motif; other site 207559008176 arginine finger; other site 207559008177 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559008178 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme; Region: NifX_NifB; cl00252 207559008179 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559008180 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 207559008181 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 207559008182 P loop nucleotide binding; other site 207559008183 switch II; other site 207559008184 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559008185 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559008186 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 207559008187 switch II; other site 207559008188 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559008189 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559008190 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 207559008191 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559008192 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 207559008193 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 207559008194 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 207559008195 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559008196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008197 putative active site [active] 207559008198 heme pocket [chemical binding]; other site 207559008199 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559008200 dimer interface [polypeptide binding]; other site 207559008201 phosphorylation site [posttranslational modification] 207559008202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008203 ATP binding site [chemical binding]; other site 207559008204 Mg2+ binding site [ion binding]; other site 207559008205 G-X-G motif; other site 207559008206 acetyl-CoA synthetase; Provisional; Region: PRK00174 207559008207 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 207559008208 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559008209 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 207559008210 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 207559008211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559008212 DsrE/DsrF-like family; Region: DrsE; cl00672 207559008213 CheD chemotactic sensory transduction; Region: CheD; cl00810 207559008214 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559008215 IHF dimer interface [polypeptide binding]; other site 207559008216 IHF - DNA interface [nucleotide binding]; other site 207559008217 Protein of unknown function (DUF523); Region: DUF523; cl00733 207559008218 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 207559008219 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 207559008220 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559008221 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 207559008222 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 207559008223 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 207559008224 2-isopropylmalate synthase; Validated; Region: PRK00915 207559008225 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 207559008226 active site 207559008227 catalytic residues [active] 207559008228 metal binding site [ion binding]; metal-binding site 207559008229 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 207559008230 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 207559008231 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 207559008232 substrate binding site [chemical binding]; other site 207559008233 ligand binding site [chemical binding]; other site 207559008234 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-...; Region: IPMI_Swivel; cd01577 207559008235 substrate binding site [chemical binding]; other site 207559008236 Protein of unknown function DUF89; Region: DUF89; cl00680 207559008237 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 207559008238 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008239 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559008240 substrate binding pocket [chemical binding]; other site 207559008241 membrane-bound complex binding site; other site 207559008242 hinge residues; other site 207559008243 PspC domain; Region: PspC; cl00864 207559008244 Phage shock protein B; Region: PspB; cl05946 207559008245 phage shock protein PspA; Provisional; Region: PRK10698 207559008246 phage shock protein A; Region: phageshock_pspA; TIGR02977 207559008247 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559008248 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008249 Walker A motif; other site 207559008250 ATP binding site [chemical binding]; other site 207559008251 Walker B motif; other site 207559008252 arginine finger; other site 207559008253 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559008254 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 207559008255 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 207559008256 dimer interface [polypeptide binding]; other site 207559008257 putative functional site; other site 207559008258 putative MPT binding site; other site 207559008259 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008260 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 207559008261 substrate binding site [chemical binding]; other site 207559008262 Domain of unknown function (DUF74); Region: DUF74; cl00426 207559008263 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559008264 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 207559008265 hypothetical protein; Provisional; Region: PRK13560 207559008266 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008267 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008268 putative active site [active] 207559008269 heme pocket [chemical binding]; other site 207559008270 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559008271 dimer interface [polypeptide binding]; other site 207559008272 phosphorylation site [posttranslational modification] 207559008273 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008274 ATP binding site [chemical binding]; other site 207559008275 Mg2+ binding site [ion binding]; other site 207559008276 G-X-G motif; other site 207559008277 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559008279 active site 207559008280 phosphorylation site [posttranslational modification] 207559008281 intermolecular recognition site; other site 207559008282 dimerization interface [polypeptide binding]; other site 207559008283 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559008285 active site 207559008286 phosphorylation site [posttranslational modification] 207559008287 intermolecular recognition site; other site 207559008288 dimerization interface [polypeptide binding]; other site 207559008289 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008290 Walker A motif; other site 207559008291 ATP binding site [chemical binding]; other site 207559008292 Walker B motif; other site 207559008293 arginine finger; other site 207559008294 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 207559008295 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 207559008296 dimer interface [polypeptide binding]; other site 207559008297 PYR/PP interface [polypeptide binding]; other site 207559008298 TPP binding site [chemical binding]; other site 207559008299 substrate binding site [chemical binding]; other site 207559008300 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559008301 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559008302 Domain of unknown function; Region: EKR; pfam10371 207559008303 4Fe-4S binding domain; Region: Fer4; cl02805 207559008304 TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 207559008305 TPP-binding site [chemical binding]; other site 207559008306 dimer interface [polypeptide binding]; other site 207559008307 L-lactate permease; Region: Lactate_perm; cl00701 207559008308 FAD binding domain; Region: FAD_binding_4; pfam01565 207559008309 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559008310 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559008311 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559008312 Cysteine-rich domain; Region: CCG; pfam02754 207559008313 Cysteine-rich domain; Region: CCG; pfam02754 207559008314 phosphate acetyltransferase; Reviewed; Region: PRK05632 207559008315 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559008316 DRTGG domain; Region: DRTGG; cl12147 207559008317 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 207559008318 Acetokinase family; Region: Acetate_kinase; cl01029 207559008319 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 207559008320 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559008321 DRTGG domain; Region: DRTGG; cl12147 207559008322 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 207559008323 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559008324 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 207559008325 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559008326 Cysteine-rich domain; Region: CCG; pfam02754 207559008327 Cysteine-rich domain; Region: CCG; pfam02754 207559008328 Cache domain; Region: Cache_2; pfam08269 207559008329 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559008330 dimerization interface [polypeptide binding]; other site 207559008331 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008332 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559008333 Uncharacterized conserved protein [Function unknown]; Region: COG2006 207559008334 Domain of unknown function (DUF362); Region: DUF362; pfam04015 207559008335 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 207559008336 active site residue [active] 207559008337 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559008338 diiron binding motif [ion binding]; other site 207559008339 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 207559008340 trimer interface [polypeptide binding]; other site 207559008341 active site 207559008342 substrate binding site [chemical binding]; other site 207559008343 CoA binding site [chemical binding]; other site 207559008344 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 207559008345 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 207559008346 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 207559008347 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 207559008348 Radical SAM; Region: Elp3; smart00729 207559008349 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559008350 FeS/SAM binding site; other site 207559008351 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559008352 S-adenosylmethionine binding site [chemical binding]; other site 207559008353 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 207559008354 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 207559008355 active site 207559008356 homodimer interface [polypeptide binding]; other site 207559008357 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 207559008358 NeuB family; Region: NeuB; cl00496 207559008359 SAF domain; Region: SAF; cl00555 207559008360 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 207559008361 ligand binding site [chemical binding]; other site 207559008362 tetramer interface [polypeptide binding]; other site 207559008363 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559008364 Cache domain; Region: Cache_2; pfam08269 207559008365 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559008366 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008367 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559008368 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 207559008369 G1 box; other site 207559008370 GTP/Mg2+ binding site [chemical binding]; other site 207559008371 Switch II region; other site 207559008372 G3 box; other site 207559008373 G4 box; other site 207559008374 G5 box; other site 207559008375 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 207559008376 putative hexamer interface [polypeptide binding]; other site 207559008377 putative hexagonal pore; other site 207559008378 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 207559008379 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 207559008380 putative hexamer interface [polypeptide binding]; other site 207559008381 putative hexagonal pore; other site 207559008382 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 207559008383 putative hexamer interface [polypeptide binding]; other site 207559008384 putative hexagonal pore; other site 207559008385 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 207559008386 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 207559008387 SLBB domain; Region: SLBB; pfam10531 207559008388 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559008389 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559008390 active site 207559008391 NAD binding site [chemical binding]; other site 207559008392 metal binding site [ion binding]; metal-binding site 207559008393 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 207559008394 Hexamer interface [polypeptide binding]; other site 207559008395 Putative hexagonal pore residue; other site 207559008396 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 207559008397 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 207559008398 putative hexamer interface [polypeptide binding]; other site 207559008399 putative hexagonal pore; other site 207559008400 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 207559008401 putative hexamer interface [polypeptide binding]; other site 207559008402 putative hexagonal pore; other site 207559008403 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 207559008404 Hexamer/Pentamer interface [polypeptide binding]; other site 207559008405 central pore; other site 207559008406 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 207559008407 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 207559008408 Cell division protein FtsA; Region: FtsA; cl11496 207559008409 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 207559008410 Propanediol utilisation protein PduL; Region: PduL; pfam06130 207559008411 Propanediol utilisation protein PduL; Region: PduL; pfam06130 207559008412 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 207559008413 Hexamer interface [polypeptide binding]; other site 207559008414 Putative hexagonal pore residue; other site 207559008415 acetaldehyde dehydrogenase (acetylating); Region: EutH_ACDH; TIGR02518 207559008416 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 207559008417 putative catalytic cysteine [active] 207559008418 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559008419 Hexamer interface [polypeptide binding]; other site 207559008420 Hexagonal pore residue; other site 207559008421 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559008422 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559008423 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559008424 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559008425 dimer interface [polypeptide binding]; other site 207559008426 active site 207559008427 glycine loop; other site 207559008428 acetaldehyde dehydrogenase (acetylating); Region: EutH_ACDH; TIGR02518 207559008429 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 207559008430 putative catalytic cysteine [active] 207559008431 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559008432 Hexamer interface [polypeptide binding]; other site 207559008433 Hexagonal pore residue; other site 207559008434 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559008435 Hexamer interface [polypeptide binding]; other site 207559008436 Hexagonal pore residue; other site 207559008437 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 207559008438 DNA binding residues [nucleotide binding] 207559008439 drug binding residues [chemical binding]; other site 207559008440 dimer interface [polypeptide binding]; other site 207559008441 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 207559008442 Cache domain; Region: Cache_1; pfam02743 207559008443 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559008444 dimerization interface [polypeptide binding]; other site 207559008445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008446 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559008447 Cache domain; Region: Cache_1; pfam02743 207559008448 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 207559008449 dimerization interface [polypeptide binding]; other site 207559008450 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559008451 YceI-like domain; Region: YceI; cl01001 207559008452 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 207559008453 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 207559008454 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008455 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559008456 BCCT family transporter; Region: BCCT; cl00569 207559008457 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008458 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 207559008459 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 207559008460 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008461 metal binding site [ion binding]; metal-binding site 207559008462 active site 207559008463 I-site; other site 207559008464 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 207559008465 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008466 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 207559008467 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 207559008468 ligand binding site [chemical binding]; other site 207559008469 subunit interaction site [polypeptide binding]; other site 207559008470 calcium binding site [ion binding]; other site 207559008471 DsrE/DsrF-like family; Region: DrsE; cl00672 207559008472 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 207559008473 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559008474 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 207559008475 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 207559008476 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 207559008477 active site 207559008478 dimer interface [polypeptide binding]; other site 207559008479 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 207559008480 Ligand Binding Site [chemical binding]; other site 207559008481 Molecular Tunnel; other site 207559008482 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008483 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 207559008484 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 207559008485 Ligand binding site [chemical binding]; other site 207559008486 Putative Catalytic site [active] 207559008487 DXD motif; other site 207559008488 Sodium:solute symporter family; Region: SSF; cl00456 207559008489 Protein of unknown function (DUF997); Region: DUF997; cl01614 207559008490 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 207559008491 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 207559008492 Walker A/P-loop; other site 207559008493 ATP binding site [chemical binding]; other site 207559008494 Q-loop/lid; other site 207559008495 ABC transporter signature motif; other site 207559008496 Walker B; other site 207559008497 D-loop; other site 207559008498 H-loop/switch region; other site 207559008499 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 207559008500 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559008502 dimer interface [polypeptide binding]; other site 207559008503 conserved gate region; other site 207559008504 putative PBP binding loops; other site 207559008505 ABC-ATPase subunit interface; other site 207559008506 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 207559008507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559008508 DNA-binding site [nucleotide binding]; DNA binding site 207559008509 UTRA domain; Region: UTRA; cl06649 207559008510 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 207559008511 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 207559008512 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 207559008513 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 207559008514 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 207559008515 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559008516 Walker A/P-loop; other site 207559008517 ATP binding site [chemical binding]; other site 207559008518 Q-loop/lid; other site 207559008519 ABC transporter signature motif; other site 207559008520 Walker B; other site 207559008521 D-loop; other site 207559008522 H-loop/switch region; other site 207559008523 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559008524 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 207559008525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559008526 Walker A/P-loop; other site 207559008527 ATP binding site [chemical binding]; other site 207559008528 Q-loop/lid; other site 207559008529 ABC transporter signature motif; other site 207559008530 Walker B; other site 207559008531 D-loop; other site 207559008532 H-loop/switch region; other site 207559008533 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 207559008534 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 207559008535 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 207559008536 active site 207559008537 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 207559008538 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 207559008539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559008540 Active site [active] 207559008541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559008542 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559008543 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559008544 binuclear metal center [ion binding]; other site 207559008545 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-...; Region: rubredoxin_SM; cd00729 207559008546 iron binding site [ion binding]; other site 207559008547 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 207559008548 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559008549 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 207559008550 Integrase core domain; Region: rve; cl01316 207559008551 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 207559008552 non-specific DNA binding site [nucleotide binding]; other site 207559008553 salt bridge; other site 207559008554 sequence-specific DNA binding site [nucleotide binding]; other site 207559008555 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 207559008556 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 207559008557 Integrase core domain; Region: rve; cl01316 207559008558 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 207559008559 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 207559008560 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 207559008561 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 207559008562 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 207559008563 IHF dimer interface [polypeptide binding]; other site 207559008564 IHF - DNA interface [nucleotide binding]; other site 207559008565 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 207559008566 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559008567 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 207559008568 Integrase core domain; Region: rve; cl01316 207559008569 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559008570 Integrase core domain; Region: rve; cl01316 207559008571 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559008572 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559008573 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 207559008574 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 207559008575 Protein of unknown function (DUF935); Region: DUF935; pfam06074 207559008576 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 207559008577 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559008578 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 207559008579 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 207559008580 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 207559008581 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 207559008582 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559008583 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 207559008584 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 207559008585 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 207559008586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559008587 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 207559008588 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 207559008589 putative active site [active] 207559008590 putative substrate binding site [chemical binding]; other site 207559008591 putative cosubstrate binding site; other site 207559008592 catalytic site [active] 207559008593 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 207559008594 Phage integrase family; Region: Phage_integrase; pfam00589 207559008595 DNA binding site [nucleotide binding] 207559008596 Int/Topo IB signature motif; other site 207559008597 active site 207559008598 transposase/IS protein; Provisional; Region: PRK09183 207559008599 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008600 Walker A motif; other site 207559008601 ATP binding site [chemical binding]; other site 207559008602 Walker B motif; other site 207559008603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 207559008604 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559008605 Integrase core domain; Region: rve; cl01316 207559008606 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 207559008607 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 207559008608 putative dimer interface [polypeptide binding]; other site 207559008609 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 207559008610 Clp amino terminal domain; Region: Clp_N; pfam02861 207559008611 Clp amino terminal domain; Region: Clp_N; pfam02861 207559008612 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008613 Walker A motif; other site 207559008614 ATP binding site [chemical binding]; other site 207559008615 Walker B motif; other site 207559008616 arginine finger; other site 207559008617 CHD5-like protein; Region: CHD5; pfam04420 207559008618 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008619 Walker A motif; other site 207559008620 ATP binding site [chemical binding]; other site 207559008621 Walker B motif; other site 207559008622 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559008623 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 207559008624 putative active site [active] 207559008625 FtsH Extracellular; Region: FtsH_ext; pfam06480 207559008626 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 207559008627 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008628 Walker A motif; other site 207559008629 ATP binding site [chemical binding]; other site 207559008630 Walker B motif; other site 207559008631 arginine finger; other site 207559008632 Peptidase family M41; Region: Peptidase_M41; pfam01434 207559008633 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 207559008634 catalytic residues [active] 207559008635 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008636 PAS fold; Region: PAS_3; pfam08447 207559008637 putative active site [active] 207559008638 heme pocket [chemical binding]; other site 207559008639 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008640 PAS fold; Region: PAS_3; pfam08447 207559008641 putative active site [active] 207559008642 heme pocket [chemical binding]; other site 207559008643 PAS domain S-box; Region: sensory_box; TIGR00229 207559008644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008645 putative active site [active] 207559008646 heme pocket [chemical binding]; other site 207559008647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008648 metal binding site [ion binding]; metal-binding site 207559008649 active site 207559008650 I-site; other site 207559008651 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 207559008652 Phosphate-starvation-inducible E; Region: PsiE; cl01264 207559008653 Peptidase family M48; Region: Peptidase_M48; cl12018 207559008654 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 207559008655 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 207559008656 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 207559008657 protein binding site [polypeptide binding]; other site 207559008658 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 207559008659 catalytic residues [active] 207559008660 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 207559008661 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008662 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 207559008663 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559008664 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559008665 ATP binding site [chemical binding]; other site 207559008666 putative Mg++ binding site [ion binding]; other site 207559008667 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 207559008668 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559008669 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559008670 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559008671 Divergent AAA domain; Region: AAA_4; pfam04326 207559008672 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559008673 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559008674 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008675 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559008676 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 207559008677 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008678 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559008679 ERF superfamily; Region: ERF; pfam04404 207559008680 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 207559008681 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008682 Walker A motif; other site 207559008683 ATP binding site [chemical binding]; other site 207559008684 Walker B motif; other site 207559008685 arginine finger; other site 207559008686 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 207559008687 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 207559008688 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 207559008689 metal ion-dependent adhesion site (MIDAS); other site 207559008690 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 207559008691 Fic family protein [Function unknown]; Region: COG3177 207559008692 Fic/DOC family; Region: Fic; cl00960 207559008693 chromosome segregation protein; Provisional; Region: PRK03918 207559008694 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 207559008695 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559008696 DNA polymerase I; Provisional; Region: PRK05755 207559008697 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 207559008698 active site 207559008699 metal binding site 1 [ion binding]; metal-binding site 207559008700 putative 5' ssDNA interaction site; other site 207559008701 metal binding site 3; metal-binding site 207559008702 metal binding site 2 [ion binding]; metal-binding site 207559008703 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 207559008704 putative DNA binding site [nucleotide binding]; other site 207559008705 putative metal binding site [ion binding]; other site 207559008706 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559008707 active site 207559008708 substrate binding site [chemical binding]; other site 207559008709 catalytic site [active] 207559008710 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 207559008711 active site 207559008712 DNA binding site [nucleotide binding] 207559008713 catalytic site [active] 207559008714 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 207559008715 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008716 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559008717 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559008718 catalytic residue [active] 207559008719 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 207559008720 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 207559008721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008722 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 207559008723 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 207559008724 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559008725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008726 Zn2+ binding site [ion binding]; other site 207559008727 Mg2+ binding site [ion binding]; other site 207559008728 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559008729 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 207559008730 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 207559008731 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 207559008732 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 207559008733 AIR carboxylase; Region: AIRC; cl00310 207559008734 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 207559008735 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 207559008736 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008737 ATP binding site [chemical binding]; other site 207559008738 Mg2+ binding site [ion binding]; other site 207559008739 G-X-G motif; other site 207559008740 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 207559008741 ATP binding site [chemical binding]; other site 207559008742 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 207559008743 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559008745 active site 207559008746 phosphorylation site [posttranslational modification] 207559008747 intermolecular recognition site; other site 207559008748 dimerization interface [polypeptide binding]; other site 207559008749 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 207559008750 PAS fold; Region: PAS_3; pfam08447 207559008751 putative active site [active] 207559008752 heme pocket [chemical binding]; other site 207559008753 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559008754 dimer interface [polypeptide binding]; other site 207559008755 phosphorylation site [posttranslational modification] 207559008756 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 207559008757 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 207559008758 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 207559008759 NADP binding site [chemical binding]; other site 207559008760 homopentamer interface [polypeptide binding]; other site 207559008761 substrate binding site [chemical binding]; other site 207559008762 active site 207559008763 Flagellin N-methylase; Region: FliB; cl00497 207559008764 Catalytic domain of Protein Kinases; Region: PKc; cd00180 207559008765 active site 207559008766 ATP binding site [chemical binding]; other site 207559008767 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 207559008768 substrate binding site [chemical binding]; other site 207559008769 activation loop (A-loop); other site 207559008770 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559008771 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559008772 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 207559008773 active site 207559008774 metal binding site [ion binding]; metal-binding site 207559008775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008776 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 207559008777 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 207559008778 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 207559008779 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 207559008780 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559008781 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 207559008782 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 207559008783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559008784 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 207559008785 putative dimerization interface [polypeptide binding]; other site 207559008786 LysE type translocator; Region: LysE; cl00565 207559008787 isocitrate dehydrogenase; Validated; Region: PRK06451 207559008788 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 207559008789 tryptophan synthase; Region: PLN02591 207559008790 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are...; Region: Tryptophan_synthase_alpha; cd04724 207559008791 substrate binding site [chemical binding]; other site 207559008792 active site 207559008793 catalytic residues [active] 207559008794 heterodimer interface [polypeptide binding]; other site 207559008795 tryptophan synthase, beta chain; Region: PLN02618 207559008796 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 207559008797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559008798 catalytic residue [active] 207559008799 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 207559008800 active site 207559008801 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 207559008802 active site 207559008803 ribulose/triose binding site [chemical binding]; other site 207559008804 phosphate binding site [ion binding]; other site 207559008805 substrate (anthranilate) binding pocket [chemical binding]; other site 207559008806 product (indole) binding pocket [chemical binding]; other site 207559008807 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 207559008808 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 207559008809 Glutamine amidotransferase class-I; Region: GATase; pfam00117 207559008810 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 207559008811 glutamine binding [chemical binding]; other site 207559008812 catalytic triad [active] 207559008813 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 207559008814 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 207559008815 chorismate binding enzyme; Region: Chorismate_bind; cl10555 207559008816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008817 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 207559008818 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 207559008819 hinge; other site 207559008820 active site 207559008821 Chorismate mutase type II; Region: CM_2; cl00693 207559008822 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 207559008823 Prephenate dehydratase; Region: PDT; pfam00800 207559008824 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 207559008825 putative L-Phe binding site [chemical binding]; other site 207559008826 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 207559008827 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 207559008828 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559008829 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559008830 putative active site; other site 207559008831 catalytic residue [active] 207559008832 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559008833 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559008834 putative active site; other site 207559008835 catalytic residue [active] 207559008836 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 207559008837 Nitrogen regulatory protein P-II; Region: P-II; cl00412 207559008838 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559008839 DHH family; Region: DHH; pfam01368 207559008840 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 207559008841 homotrimer interface [polypeptide binding]; other site 207559008842 Walker A motif; other site 207559008843 GTP binding site [chemical binding]; other site 207559008844 Walker B motif; other site 207559008845 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 207559008846 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 207559008847 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 207559008848 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 207559008849 UvrD/REP helicase; Region: UvrD-helicase; cl14126 207559008850 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 207559008851 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 207559008852 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559008853 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559008854 putative active site; other site 207559008855 catalytic residue [active] 207559008856 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 207559008857 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 207559008858 Cl- selectivity filter; other site 207559008859 Cl- binding residues [ion binding]; other site 207559008860 pore gating glutamate residue; other site 207559008861 dimer interface [polypeptide binding]; other site 207559008862 FOG: CBS domain [General function prediction only]; Region: COG0517 207559008863 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC...; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 207559008864 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 207559008865 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 207559008866 active site 207559008867 Riboflavin kinase; Region: Flavokinase; pfam01687 207559008868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008869 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559008870 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 207559008871 Peptidase family M48; Region: Peptidase_M48; cl12018 207559008872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559008873 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559008874 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 207559008875 molybdopterin cofactor binding site; other site 207559008876 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 207559008877 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 207559008878 molybdopterin cofactor binding site; other site 207559008879 Fe-S containing; Region: FDH-beta; TIGR01582 207559008880 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 207559008881 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 207559008882 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 207559008883 Phage integrase family; Region: Phage_integrase; pfam00589 207559008884 C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 207559008885 Int/Topo IB signature motif; other site 207559008886 active site 207559008887 catalytic residues [active] 207559008888 DNA binding site [nucleotide binding] 207559008889 TOBE domain; Region: TOBE_2; cl01440 207559008890 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 207559008891 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559008893 dimer interface [polypeptide binding]; other site 207559008894 conserved gate region; other site 207559008895 putative PBP binding loops; other site 207559008896 ABC-ATPase subunit interface; other site 207559008897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559008898 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 207559008899 Walker A/P-loop; other site 207559008900 ATP binding site [chemical binding]; other site 207559008901 Q-loop/lid; other site 207559008902 ABC transporter signature motif; other site 207559008903 Walker B; other site 207559008904 D-loop; other site 207559008905 H-loop/switch region; other site 207559008906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559008907 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 207559008908 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559008909 dimer interface [polypeptide binding]; other site 207559008910 active site 207559008911 metal binding site [ion binding]; metal-binding site 207559008912 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559008913 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559008914 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 207559008915 Cysteine-rich domain; Region: CCG; pfam02754 207559008916 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559008917 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 207559008918 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 207559008919 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 207559008920 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 207559008921 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 207559008922 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 207559008923 FAD binding pocket [chemical binding]; other site 207559008924 FAD binding motif [chemical binding]; other site 207559008925 phosphate binding motif [ion binding]; other site 207559008926 beta-alpha-beta structure motif; other site 207559008927 NAD binding pocket [chemical binding]; other site 207559008928 Iron coordination center [ion binding]; other site 207559008929 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559008930 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559008931 active site 207559008932 NAD binding site [chemical binding]; other site 207559008933 metal binding site [ion binding]; metal-binding site 207559008934 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008935 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559008936 dimer interface [polypeptide binding]; other site 207559008937 phosphorylation site [posttranslational modification] 207559008938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008939 ATP binding site [chemical binding]; other site 207559008940 Mg2+ binding site [ion binding]; other site 207559008941 G-X-G motif; other site 207559008942 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559008944 active site 207559008945 phosphorylation site [posttranslational modification] 207559008946 intermolecular recognition site; other site 207559008947 dimerization interface [polypeptide binding]; other site 207559008948 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559008949 Walker A motif; other site 207559008950 ATP binding site [chemical binding]; other site 207559008951 Walker B motif; other site 207559008952 arginine finger; other site 207559008953 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559008954 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 207559008955 putative MPT binding site; other site 207559008956 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 207559008957 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 207559008958 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 207559008959 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 207559008960 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 207559008961 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 207559008962 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559008963 Cysteine-rich domain; Region: CCG; pfam02754 207559008964 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 207559008965 S-adenosylmethionine binding site [chemical binding]; other site 207559008966 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 207559008967 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 207559008968 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 207559008969 FeS/SAM binding site; other site 207559008970 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 207559008971 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 207559008972 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 207559008973 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559008974 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 207559008975 Ligand binding site [chemical binding]; other site 207559008976 metal binding site [ion binding]; metal-binding site 207559008977 Transposase domain (DUF772); Region: DUF772; cl12084 207559008978 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559008979 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 207559008980 catalytic core [active] 207559008981 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 207559008982 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 207559008983 aspartate ammonia-lyase; Provisional; Region: PRK13353 207559008984 Aspartase; Region: Aspartase; cd01357 207559008985 active sites [active] 207559008986 tetramer interface [polypeptide binding]; other site 207559008987 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 207559008988 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 207559008989 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559008990 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008991 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 207559008992 Domain of unknown function DUF302; Region: DUF302; cl01364 207559008993 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 207559008994 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 207559008995 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 207559008996 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 207559008997 NAD(P) binding site [chemical binding]; other site 207559008998 shikimate binding site; other site 207559008999 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 207559009000 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559009001 HisG, C-terminal domain; Region: HisG_C; cl06867 207559009002 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 207559009003 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 207559009004 homodimer interaction site [polypeptide binding]; other site 207559009005 cofactor binding site; other site 207559009006 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cl00214 207559009007 intersubunit interface [polypeptide binding]; other site 207559009008 active site 207559009009 Zn2+ binding site [ion binding]; other site 207559009010 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 207559009011 thiamine monophosphate kinase; Provisional; Region: PRK05731 207559009012 ATP binding site [chemical binding]; other site 207559009013 dimerization interface [polypeptide binding]; other site 207559009014 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 207559009015 UvrD/REP helicase; Region: UvrD-helicase; cl14126 207559009016 Uncharacterized conserved protein [Function unknown]; Region: COG3379 207559009017 Sulfatase; Region: Sulfatase; cl10460 207559009018 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 207559009019 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559009020 catalytic residue [active] 207559009021 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009022 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 207559009023 putative peptidoglycan binding site; other site 207559009024 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009025 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 207559009026 putative peptidoglycan binding site; other site 207559009027 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009028 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 207559009029 putative peptidoglycan binding site; other site 207559009030 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 207559009031 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 207559009032 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559009033 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 207559009034 FliP family; Region: FliP; cl00593 207559009035 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 207559009036 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 207559009037 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 207559009038 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559009039 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009040 ligand binding site [chemical binding]; other site 207559009041 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559009042 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009043 ligand binding site [chemical binding]; other site 207559009044 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559009045 flagellar motor protein MotP; Reviewed; Region: PRK06926 207559009046 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 207559009047 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559009048 catalytic residue [active] 207559009049 GTPase Era; Reviewed; Region: era; PRK00089 207559009050 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 207559009051 G1 box; other site 207559009052 GTP/Mg2+ binding site [chemical binding]; other site 207559009053 Switch I region; other site 207559009054 G2 box; other site 207559009055 Switch II region; other site 207559009056 G3 box; other site 207559009057 G4 box; other site 207559009058 G5 box; other site 207559009059 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 207559009060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 207559009061 Integrase core domain; Region: rve; cl01316 207559009062 Sugar fermentation stimulation protein; Region: SfsA; cl00647 207559009063 aspartate aminotransferase; Provisional; Region: PRK08361 207559009064 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 207559009065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009066 homodimer interface [polypeptide binding]; other site 207559009067 catalytic residue [active] 207559009068 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 207559009069 active site 207559009070 dimer interface [polypeptide binding]; other site 207559009071 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 207559009072 dimer interface [polypeptide binding]; other site 207559009073 active site 207559009074 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559009075 dimer interface [polypeptide binding]; other site 207559009076 phosphorylation site [posttranslational modification] 207559009077 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009078 ATP binding site [chemical binding]; other site 207559009079 Mg2+ binding site [ion binding]; other site 207559009080 G-X-G motif; other site 207559009081 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559009082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559009083 active site 207559009084 phosphorylation site [posttranslational modification] 207559009085 intermolecular recognition site; other site 207559009086 dimerization interface [polypeptide binding]; other site 207559009087 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 207559009088 Walker A motif; other site 207559009089 ATP binding site [chemical binding]; other site 207559009090 Walker B motif; other site 207559009091 arginine finger; other site 207559009092 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 207559009093 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 207559009094 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 207559009095 phosphate binding site [ion binding]; other site 207559009096 putative substrate binding pocket [chemical binding]; other site 207559009097 dimer interface [polypeptide binding]; other site 207559009098 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559009099 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 207559009100 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 207559009101 ATP binding site [chemical binding]; other site 207559009102 putative Mg++ binding site [ion binding]; other site 207559009103 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 207559009104 nucleotide binding region [chemical binding]; other site 207559009105 ATP-binding site [chemical binding]; other site 207559009106 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 207559009107 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559009108 active site 207559009109 substrate binding site [chemical binding]; other site 207559009110 catalytic site [active] 207559009111 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 207559009112 FAD binding domain; Region: FAD_binding_4; pfam01565 207559009113 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559009114 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559009115 active site 207559009116 nucleotide binding site [chemical binding]; other site 207559009117 HIGH motif; other site 207559009118 KMSKS motif; other site 207559009119 Flagellin N-methylase; Region: FliB; cl00497 207559009120 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 207559009121 active site 207559009122 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 207559009123 HIGH motif; other site 207559009124 dimer interface [polypeptide binding]; other site 207559009125 KMSKS motif; other site 207559009126 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 207559009127 active site 207559009128 putative substrate binding region [chemical binding]; other site 207559009129 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559009131 active site 207559009132 phosphorylation site [posttranslational modification] 207559009133 intermolecular recognition site; other site 207559009134 dimerization interface [polypeptide binding]; other site 207559009135 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 207559009136 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_II; cd01993 207559009137 Ligand Binding Site [chemical binding]; other site 207559009138 TIGR00269 family protein; Region: TIGR00269 207559009139 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559009140 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559009141 active site 207559009142 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 207559009143 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 207559009144 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_2; cd03814 207559009145 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559009146 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 207559009147 rRNA binding site [nucleotide binding]; other site 207559009148 predicted 30S ribosome binding site; other site 207559009149 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 207559009150 active site 207559009151 metal binding site [ion binding]; metal-binding site 207559009152 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 207559009153 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 207559009154 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 207559009155 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 207559009156 Glutamine amidotransferase class-I; Region: GATase; pfam00117 207559009157 glutamine binding [chemical binding]; other site 207559009158 catalytic triad [active] 207559009159 chorismate binding enzyme; Region: Chorismate_bind; cl10555 207559009160 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 207559009161 homodimer interface [polypeptide binding]; other site 207559009162 substrate-cofactor binding pocket; other site 207559009163 Aminotransferase class IV; Region: Aminotran_4; pfam01063 207559009164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009165 catalytic residue [active] 207559009166 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559009167 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559009168 substrate binding pocket [chemical binding]; other site 207559009169 membrane-bound complex binding site; other site 207559009170 hinge residues; other site 207559009171 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 207559009172 active site 207559009173 DNA polymerase IV; Validated; Region: PRK02406 207559009174 DNA binding site [nucleotide binding] 207559009175 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559009176 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 207559009177 active site 207559009178 metal binding site [ion binding]; metal-binding site 207559009179 DNA binding site [nucleotide binding] 207559009180 Uncharacterized conserved protein [Function unknown]; Region: COG4717 207559009181 Uncharacterized conserved protein [Function unknown]; Region: COG4717 207559009182 Predicted GTPase [General function prediction only]; Region: COG2403 207559009183 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 207559009184 Outer membrane efflux protein; Region: OEP; pfam02321 207559009185 Outer membrane efflux protein; Region: OEP; pfam02321 207559009186 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559009187 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559009188 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 207559009189 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 207559009190 TolA protein; Region: tolA_full; TIGR02794 207559009191 TolA C-terminal; Region: TolA; pfam06519 207559009192 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 207559009193 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559009194 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559009195 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009196 ligand binding site [chemical binding]; other site 207559009197 putative oxidoreductase; Provisional; Region: PRK12831 207559009198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 207559009199 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 207559009200 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-...; Region: DHOD_e_trans_like1; cd06219 207559009201 FAD binding pocket [chemical binding]; other site 207559009202 FAD binding motif [chemical binding]; other site 207559009203 phosphate binding motif [ion binding]; other site 207559009204 beta-alpha-beta structure motif; other site 207559009205 NAD binding pocket [chemical binding]; other site 207559009206 Iron coordination center [ion binding]; other site 207559009207 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 207559009208 Malic enzyme, N-terminal domain; Region: malic; pfam00390 207559009209 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 207559009210 putative NAD(P) binding site [chemical binding]; other site 207559009211 Fumarase C-terminus; Region: Fumerase_C; cl00795 207559009212 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 207559009213 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 207559009214 putative trimer interface [polypeptide binding]; other site 207559009215 putative CoA binding site [chemical binding]; other site 207559009216 high affinity sulphate transporter 1; Region: sulP; TIGR00815 207559009217 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559009218 Sulfate transporter family; Region: Sulfate_transp; cl00967 207559009219 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 207559009220 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 207559009221 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559009222 binding surface 207559009223 TPR motif; other site 207559009224 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 207559009225 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 207559009226 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 207559009227 catalytic site [active] 207559009228 subunit interface [polypeptide binding]; other site 207559009229 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 207559009230 Ligand binding site [chemical binding]; other site 207559009231 oligomer interface [polypeptide binding]; other site 207559009232 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 207559009233 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 207559009234 G1 box; other site 207559009235 putative GEF interaction site [polypeptide binding]; other site 207559009236 GTP/Mg2+ binding site [chemical binding]; other site 207559009237 Switch I region; other site 207559009238 G2 box; other site 207559009239 G3 box; other site 207559009240 Switch II region; other site 207559009241 G4 box; other site 207559009242 G5 box; other site 207559009243 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 207559009244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 207559009245 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 207559009246 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 207559009247 dimer interface [polypeptide binding]; other site 207559009248 active site 207559009249 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 207559009250 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 207559009251 Transcriptional regulators [Transcription]; Region: PurR; COG1609 207559009252 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 207559009253 DNA binding site [nucleotide binding] 207559009254 domain linker motif; other site 207559009255 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 207559009256 dimerization interface [polypeptide binding]; other site 207559009257 ligand binding site [chemical binding]; other site 207559009258 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 207559009259 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 207559009260 active site 207559009261 catalytic residues [active] 207559009262 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 207559009263 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 207559009264 Walker A/P-loop; other site 207559009265 ATP binding site [chemical binding]; other site 207559009266 Q-loop/lid; other site 207559009267 ABC transporter signature motif; other site 207559009268 Walker B; other site 207559009269 D-loop; other site 207559009270 H-loop/switch region; other site 207559009271 TOBE domain; Region: TOBE_2; cl01440 207559009272 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559009273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 207559009274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 207559009275 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 207559009276 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559009277 dimer interface [polypeptide binding]; other site 207559009278 conserved gate region; other site 207559009279 putative PBP binding loops; other site 207559009280 ABC-ATPase subunit interface; other site 207559009281 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559009282 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 207559009283 putative acyl-acceptor binding pocket; other site 207559009284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559009285 Protein of unknown function (DUF523); Region: DUF523; cl00733 207559009286 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559009287 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 207559009288 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 207559009289 Walker A/P-loop; other site 207559009290 ATP binding site [chemical binding]; other site 207559009291 Q-loop/lid; other site 207559009292 ABC transporter signature motif; other site 207559009293 Walker B; other site 207559009294 D-loop; other site 207559009295 H-loop/switch region; other site 207559009296 TOBE domain; Region: TOBE_2; cl01440 207559009297 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559009298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559009299 dimer interface [polypeptide binding]; other site 207559009300 conserved gate region; other site 207559009301 putative PBP binding loops; other site 207559009302 ABC-ATPase subunit interface; other site 207559009303 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559009304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559009305 dimer interface [polypeptide binding]; other site 207559009306 ABC-ATPase subunit interface; other site 207559009307 putative PBP binding loops; other site 207559009308 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 207559009309 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559009310 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559009311 metal binding site 2 [ion binding]; metal-binding site 207559009312 putative DNA binding helix; other site 207559009313 metal binding site 1 [ion binding]; metal-binding site 207559009314 dimer interface [polypeptide binding]; other site 207559009315 structural Zn2+ binding site [ion binding]; other site 207559009316 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 207559009317 substrate binding site [chemical binding]; other site 207559009318 nucleotide binding site [chemical binding]; other site 207559009319 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 207559009320 trimer interface [polypeptide binding]; other site 207559009321 active site 207559009322 substrate binding site [chemical binding]; other site 207559009323 CoA binding site [chemical binding]; other site 207559009324 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 207559009325 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 207559009326 active site 207559009327 dimer interface [polypeptide binding]; other site 207559009328 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 207559009329 Ligand Binding Site [chemical binding]; other site 207559009330 Molecular Tunnel; other site 207559009331 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559009332 active site 207559009333 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 207559009334 ligand binding site [chemical binding]; other site 207559009335 tetramer interface [polypeptide binding]; other site 207559009336 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559009337 active site 207559009338 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 207559009339 trimer interface [polypeptide binding]; other site 207559009340 active site 207559009341 substrate binding site [chemical binding]; other site 207559009342 CoA binding site [chemical binding]; other site 207559009343 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 207559009344 NeuB family; Region: NeuB; cl00496 207559009345 SAF domain; Region: SAF; cl00555 207559009346 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 207559009347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559009348 Walker A/P-loop; other site 207559009349 ATP binding site [chemical binding]; other site 207559009350 Q-loop/lid; other site 207559009351 ABC transporter signature motif; other site 207559009352 Walker B; other site 207559009353 D-loop; other site 207559009354 H-loop/switch region; other site 207559009355 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 207559009356 dimerization interface [polypeptide binding]; other site 207559009357 putative DNA binding site [nucleotide binding]; other site 207559009358 putative Zn2+ binding site [ion binding]; other site 207559009359 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 207559009360 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 207559009361 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559009362 extended (e) SDRs; Region: SDR_e; cd08946 207559009363 NAD(P) binding site [chemical binding]; other site 207559009364 active site 207559009365 substrate binding site [chemical binding]; other site 207559009366 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 207559009367 Ligand binding site [chemical binding]; other site 207559009368 oligomer interface [polypeptide binding]; other site 207559009369 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 207559009370 trimer interface [polypeptide binding]; other site 207559009371 active site 207559009372 substrate binding site [chemical binding]; other site 207559009373 CoA binding site [chemical binding]; other site 207559009374 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 207559009375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009376 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 207559009377 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 207559009378 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559009379 motif II; other site 207559009380 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559009381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009382 NAD(P) binding site [chemical binding]; other site 207559009383 active site 207559009384 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 207559009385 trimer interface [polypeptide binding]; other site 207559009386 active site 207559009387 substrate binding site [chemical binding]; other site 207559009388 CoA binding site [chemical binding]; other site 207559009389 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 207559009390 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 207559009391 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559009392 catalytic residue [active] 207559009393 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 207559009394 substrate binding site [chemical binding]; other site 207559009395 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 207559009396 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 207559009397 NAD binding site [chemical binding]; other site 207559009398 homotetramer interface [polypeptide binding]; other site 207559009399 homodimer interface [polypeptide binding]; other site 207559009400 substrate binding site [chemical binding]; other site 207559009401 active site 207559009402 Cupin domain; Region: Cupin_2; cl09118 207559009403 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 207559009404 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 207559009405 inhibitor-cofactor binding pocket; inhibition site 207559009406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009407 catalytic residue [active] 207559009408 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 207559009409 active site 207559009410 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 207559009411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 207559009412 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 207559009413 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 207559009414 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559009415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559009416 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 207559009417 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 207559009418 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559009419 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559009420 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 207559009421 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 207559009422 dimer interface [polypeptide binding]; other site 207559009423 putative tRNA-binding site [nucleotide binding]; other site 207559009424 translocation protein TolB; Provisional; Region: tolB; PRK05137 207559009425 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559009426 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559009427 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559009428 heme-binding residues [chemical binding]; other site 207559009429 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559009430 Ligand Binding Site [chemical binding]; other site 207559009431 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 207559009432 Ligand Binding Site [chemical binding]; other site 207559009433 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559009435 active site 207559009436 phosphorylation site [posttranslational modification] 207559009437 intermolecular recognition site; other site 207559009438 dimerization interface [polypeptide binding]; other site 207559009439 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559009441 active site 207559009442 phosphorylation site [posttranslational modification] 207559009443 intermolecular recognition site; other site 207559009444 dimerization interface [polypeptide binding]; other site 207559009445 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559009447 active site 207559009448 phosphorylation site [posttranslational modification] 207559009449 intermolecular recognition site; other site 207559009450 dimerization interface [polypeptide binding]; other site 207559009451 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559009452 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559009453 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009454 ATP binding site [chemical binding]; other site 207559009455 Mg2+ binding site [ion binding]; other site 207559009456 G-X-G motif; other site 207559009457 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 207559009459 active site 207559009460 phosphorylation site [posttranslational modification] 207559009461 intermolecular recognition site; other site 207559009462 dimerization interface [polypeptide binding]; other site 207559009463 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559009464 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009465 ATP binding site [chemical binding]; other site 207559009466 Mg2+ binding site [ion binding]; other site 207559009467 G-X-G motif; other site 207559009468 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559009469 PAS fold; Region: PAS_4; pfam08448 207559009470 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559009471 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559009472 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559009473 dimer interface [polypeptide binding]; other site 207559009474 phosphorylation site [posttranslational modification] 207559009475 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009476 ATP binding site [chemical binding]; other site 207559009477 Mg2+ binding site [ion binding]; other site 207559009478 G-X-G motif; other site 207559009479 Predicted transcriptional regulator [Transcription]; Region: COG1959 207559009480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559009481 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 207559009482 dimerization interface [polypeptide binding]; other site 207559009483 putative DNA binding site [nucleotide binding]; other site 207559009484 putative Zn2+ binding site [ion binding]; other site 207559009485 Predicted permease; Region: DUF318; cl00487 207559009486 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559009487 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559009488 dimer interface [polypeptide binding]; other site 207559009489 conserved gate region; other site 207559009490 ABC-ATPase subunit interface; other site 207559009491 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559009492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559009493 dimer interface [polypeptide binding]; other site 207559009494 conserved gate region; other site 207559009495 ABC-ATPase subunit interface; other site 207559009496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559009497 ABC transporter signature motif; other site 207559009498 Walker B; other site 207559009499 D-loop; other site 207559009500 H-loop/switch region; other site 207559009501 Transposase domain (DUF772); Region: DUF772; cl12084 207559009502 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559009503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 207559009504 Walker A/P-loop; other site 207559009505 ATP binding site [chemical binding]; other site 207559009506 Q-loop/lid; other site 207559009507 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559009508 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559009509 substrate binding pocket [chemical binding]; other site 207559009510 membrane-bound complex binding site; other site 207559009511 hinge residues; other site 207559009512 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 207559009513 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 207559009514 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 207559009515 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 207559009516 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 207559009517 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 207559009518 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 207559009519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009520 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 207559009521 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 207559009522 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559009523 GAF domain; Region: GAF; cl00853 207559009524 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 207559009525 PAS domain S-box; Region: sensory_box; TIGR00229 207559009526 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 207559009527 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 207559009528 DNA binding residues [nucleotide binding] 207559009529 dimerization interface [polypeptide binding]; other site 207559009530 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559009531 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 207559009532 substrate binding pocket [chemical binding]; other site 207559009533 membrane-bound complex binding site; other site 207559009534 hinge residues; other site 207559009535 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559009536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 207559009537 dimer interface [polypeptide binding]; other site 207559009538 conserved gate region; other site 207559009539 putative PBP binding loops; other site 207559009540 ABC-ATPase subunit interface; other site 207559009541 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559009542 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 207559009543 Walker A/P-loop; other site 207559009544 ATP binding site [chemical binding]; other site 207559009545 Q-loop/lid; other site 207559009546 ABC transporter signature motif; other site 207559009547 Walker B; other site 207559009548 D-loop; other site 207559009549 H-loop/switch region; other site 207559009550 Integrase core domain; Region: rve; cl01316 207559009551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 207559009552 putative transposase OrfB; Reviewed; Region: PHA02517 207559009553 Integrase core domain; Region: rve; cl01316 207559009554 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559009555 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 207559009556 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 207559009557 Magnesium ion binding site [ion binding]; other site 207559009558 Integrase core domain; Region: rve; cl01316 207559009559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559009560 metal binding site [ion binding]; metal-binding site 207559009561 active site 207559009562 I-site; other site 207559009563 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559009564 heme-binding residues [chemical binding]; other site 207559009565 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 207559009566 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 207559009567 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 207559009568 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 207559009569 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 207559009570 Integrase core domain; Region: rve; cl01316 207559009571 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 207559009572 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 207559009573 rRNA binding site [nucleotide binding]; other site 207559009574 predicted 30S ribosome binding site; other site 207559009575 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559009576 binding surface 207559009577 TPR motif; other site 207559009578 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 207559009579 binding surface 207559009580 TPR motif; other site 207559009581 NIMA-related protein kinase; Provisional; Region: PTZ00267 207559009582 Flagellin N-methylase; Region: FliB; cl00497 207559009583 Ferredoxin [Energy production and conversion]; Region: COG1146 207559009584 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559009585 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 207559009586 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 207559009587 protein binding site [polypeptide binding]; other site 207559009588 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated...; Region: PDZ; cd00136 207559009589 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 207559009590 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 207559009591 putative dimer interface [polypeptide binding]; other site 207559009592 active site pocket [active] 207559009593 putative cataytic base [active] 207559009594 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559009595 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559009596 Walker A/P-loop; other site 207559009597 ATP binding site [chemical binding]; other site 207559009598 Q-loop/lid; other site 207559009599 ABC transporter signature motif; other site 207559009600 Walker B; other site 207559009601 D-loop; other site 207559009602 H-loop/switch region; other site 207559009603 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559009604 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559009605 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 207559009606 Phosphate transporter family; Region: PHO4; cl00396 207559009607 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 207559009608 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559009609 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 207559009610 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 207559009611 dimer interface [polypeptide binding]; other site 207559009612 phosphorylation site [posttranslational modification] 207559009613 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009614 ATP binding site [chemical binding]; other site 207559009615 Mg2+ binding site [ion binding]; other site 207559009616 G-X-G motif; other site 207559009617 putative peptidase; Provisional; Region: PRK11649 207559009618 Peptidase family M23; Region: Peptidase_M23; pfam01551